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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDiseases

Fusion gene ID: 34779

FusionGeneSummary for SMARCA1_ALG13

check button Fusion gene summary
Fusion gene informationFusion gene name: SMARCA1_ALG13
Fusion gene ID: 34779
HgeneTgene
Gene symbol

SMARCA1

ALG13

Gene ID

6594

79868

Gene nameSWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1ALG13, UDP-N-acetylglucosaminyltransferase subunit
SynonymsISWI|NURF140|SNF2L|SNF2L1|SNF2LB|SNF2LT|SWI|SWI2|hSNF2LCDG1S|CXorf45|EIEE36|GLT28D1|MDS031|TDRD13|YGL047W
Cytomap

Xq25-q26.1

Xq23

Type of geneprotein-codingprotein-coding
Descriptionprobable global transcription activator SNF2L1ATP-dependent helicase SMARCA1SNF2-like 1global transcription activator homologous sequencenucleosome-remodeling factor subunit SNF2Lsucrose nonfermenting 2-like protein 1putative bifunctional UDP-N-acetylglucosamine transferase and deubiquitinase ALG13N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferaseUDP-N-acetylglucosamine transferase subunit ALG13 homologasparagine-linked glycosylation 13 homologg
Modification date2018051920180523
UniProtAcc

P28370

Q9NP73

Ensembl transtripts involved in fusion geneENST00000371121, ENST00000371122, 
ENST00000371123, ENST00000478420, 
ENST00000371979, ENST00000251943, 
ENST00000394780, ENST00000470971, 
Fusion gene scores* DoF score4 X 4 X 3=482 X 2 X 2=8
# samples 42
** MAII scorelog2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(2/8*10)=1.32192809488736
Context

PubMed: SMARCA1 [Title/Abstract] AND ALG13 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotationKinase involved fusion gene, inframe and retained kinase domain.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneSMARCA1

GO:0006338

chromatin remodeling

14609955

HgeneSMARCA1

GO:0043044

ATP-dependent chromatin remodeling

15640247


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVPRADTCGA-TK-A8OK-01ASMARCA1chrX

128633709

-ALG13chrX

110925464

+
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
In-frameENST00000371121ENST00000371979SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-5UTRENST00000371121ENST00000251943SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-5UTRENST00000371121ENST00000394780SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-intronENST00000371121ENST00000470971SMARCA1chrX

128633709

-ALG13chrX

110925464

+
In-frameENST00000371122ENST00000371979SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-5UTRENST00000371122ENST00000251943SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-5UTRENST00000371122ENST00000394780SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-intronENST00000371122ENST00000470971SMARCA1chrX

128633709

-ALG13chrX

110925464

+
In-frameENST00000371123ENST00000371979SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-5UTRENST00000371123ENST00000251943SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-5UTRENST00000371123ENST00000394780SMARCA1chrX

128633709

-ALG13chrX

110925464

+
5CDS-intronENST00000371123ENST00000470971SMARCA1chrX

128633709

-ALG13chrX

110925464

+
intron-3CDSENST00000478420ENST00000371979SMARCA1chrX

128633709

-ALG13chrX

110925464

+
intron-5UTRENST00000478420ENST00000251943SMARCA1chrX

128633709

-ALG13chrX

110925464

+
intron-5UTRENST00000478420ENST00000394780SMARCA1chrX

128633709

-ALG13chrX

110925464

+
intron-intronENST00000478420ENST00000470971SMARCA1chrX

128633709

-ALG13chrX

110925464

+

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FusionProtFeatures for SMARCA1_ALG13


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SMARCA1

P28370

ALG13

Q9NP73

Energy-transducing component of NURF (nucleosome-remodeling factor) and CERF (CECR2-containing-remodeling factor)complexes. Both complexes facilitate the perturbation of chromatinstructure in an ATP-dependent manner. Potentiates neuriteoutgrowth. May be involved in brain development by regulating En-1and En-2 expression. May be involved in the development of lutealcells. {ECO:0000269|PubMed:14609955, ECO:0000269|PubMed:15310751,ECO:0000269|PubMed:15640247, ECO:0000269|PubMed:16740656}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

.

* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
>>>>>>>>>>>>>>>
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371121-1024195_3604251232DomainHelicase ATP-binding
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371122-1025195_3604251237DomainHelicase ATP-binding
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371123-1024195_3604251203DomainHelicase ATP-binding
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371121-1024311_3144251232MotifNote=DEAH box
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371122-1025311_3144251237MotifNote=DEAH box
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371123-1024311_3144251203MotifNote=DEAH box
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371121-1024208_2154251232Nucleotide bindingATP
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371122-1025208_2154251237Nucleotide bindingATP
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371123-1024208_2154251203Nucleotide bindingATP
TgeneALG13chrX:128633709chrX:110925464ENST00000251943+026887_970-138955Compositional biasNote=Pro-rich
TgeneALG13chrX:128633709chrX:110925464ENST00000371979+04887_970-34166Compositional biasNote=Pro-rich
TgeneALG13chrX:128633709chrX:110925464ENST00000394780+027887_970-41138Compositional biasNote=Pro-rich
TgeneALG13chrX:128633709chrX:110925464ENST00000251943+026231_352-138955DomainOTU
TgeneALG13chrX:128633709chrX:110925464ENST00000251943+026492_552-138955DomainTudor
TgeneALG13chrX:128633709chrX:110925464ENST00000371979+04231_352-34166DomainOTU
TgeneALG13chrX:128633709chrX:110925464ENST00000371979+04492_552-34166DomainTudor
TgeneALG13chrX:128633709chrX:110925464ENST00000394780+027231_352-41138DomainOTU
TgeneALG13chrX:128633709chrX:110925464ENST00000394780+027492_552-41138DomainTudor
TgeneALG13chrX:128633709chrX:110925464ENST00000251943+026126_400-138955RegionNote=Deubiquitinase activity
TgeneALG13chrX:128633709chrX:110925464ENST00000251943+0261_125-138955RegionNote=Glycosyltransferase activity
TgeneALG13chrX:128633709chrX:110925464ENST00000371979+04126_400-34166RegionNote=Deubiquitinase activity
TgeneALG13chrX:128633709chrX:110925464ENST00000371979+041_125-34166RegionNote=Glycosyltransferase activity
TgeneALG13chrX:128633709chrX:110925464ENST00000394780+027126_400-41138RegionNote=Deubiquitinase activity
TgeneALG13chrX:128633709chrX:110925464ENST00000394780+0271_125-41138RegionNote=Glycosyltransferase activity

- In-frame and not-retained protein feature among the 13 regional features.
>>>>>>>>>
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371121-1024490_6534251232DomainHelicase C-terminal
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371121-1024855_9074251232DomainSANT 1
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371121-1024958_10224251232DomainSANT 2
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371122-1025490_6534251237DomainHelicase C-terminal
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371122-1025855_9074251237DomainSANT 1
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371122-1025958_10224251237DomainSANT 2
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371123-1024490_6534251203DomainHelicase C-terminal
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371123-1024855_9074251203DomainSANT 1
HgeneSMARCA1chrX:128633709chrX:110925464ENST00000371123-1024958_10224251203DomainSANT 2


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FusionGeneSequence for SMARCA1_ALG13


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.
>In-frame_SMARCA1_ENST00000371121_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_564aa
MEQDTAAVAATVAAADATATIVVIEDEQPGPSTSQEEGAAAAATEATAATEKGEKKKEKNVSSFQLKLAAKAPKSEKEMDPEYEEKMKAD
RAKRFEFLLKQTELFAHFIQPSAQKSPTSPLNMKLGRPRIKKDEKQSLISAGDYRHRRTEQEEDEELLSESRKTSNVCIRFEVSPSYVKG
GPLRDYQIRGLNWLISLYENGVNGILADEMGLGKTLQTIALLGYLKHYRNIPGPHMVLVPKSTLHNWMNEFKRWVPSLRVICFVGDKDAR
AAFIRDEMMPGEWDVCVTSYEMVIKEKSVFKKFHWRYLVIDEAHRIKNEKSKLSEIVREFKSTNRLLLTGTPLQNNLHELWALLNFLLPD
VFNSADDFDSWFDTKNCLGDQKLVERLHAVLKPFLLRRIKTDVEKSLPPKKEIKIYLGLSKMQREXKSRALVTTDLSCKLVEERWYLNPS
VLSRLLWMFTGTRIPXKKTFRKQILLLVTQVQEAVWRLWKKESHSXWLXTKSXXTIISWNWQSSYTKRVISSIVPAARFLGCYSQWTYQH

>In-frame_SMARCA1_ENST00000371122_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_564aa
MEQDTAAVAATVAAADATATIVVIEDEQPGPSTSQEEGAAAAATEATAATEKGEKKKEKNVSSFQLKLAAKAPKSEKEMDPEYEEKMKAD
RAKRFEFLLKQTELFAHFIQPSAQKSPTSPLNMKLGRPRIKKDEKQSLISAGDYRHRRTEQEEDEELLSESRKTSNVCIRFEVSPSYVKG
GPLRDYQIRGLNWLISLYENGVNGILADEMGLGKTLQTIALLGYLKHYRNIPGPHMVLVPKSTLHNWMNEFKRWVPSLRVICFVGDKDAR
AAFIRDEMMPGEWDVCVTSYEMVIKEKSVFKKFHWRYLVIDEAHRIKNEKSKLSEIVREFKSTNRLLLTGTPLQNNLHELWALLNFLLPD
VFNSADDFDSWFDTKNCLGDQKLVERLHAVLKPFLLRRIKTDVEKSLPPKKEIKIYLGLSKMQREXKSRALVTTDLSCKLVEERWYLNPS
VLSRLLWMFTGTRIPXKKTFRKQILLLVTQVQEAVWRLWKKESHSXWLXTKSXXTIISWNWQSSYTKRVISSIVPAARFLGCYSQWTYQH

>In-frame_SMARCA1_ENST00000371123_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_564aa
MEQDTAAVAATVAAADATATIVVIEDEQPGPSTSQEEGAAAAATEATAATEKGEKKKEKNVSSFQLKLAAKAPKSEKEMDPEYEEKMKAD
RAKRFEFLLKQTELFAHFIQPSAQKSPTSPLNMKLGRPRIKKDEKQSLISAGDYRHRRTEQEEDEELLSESRKTSNVCIRFEVSPSYVKG
GPLRDYQIRGLNWLISLYENGVNGILADEMGLGKTLQTIALLGYLKHYRNIPGPHMVLVPKSTLHNWMNEFKRWVPSLRVICFVGDKDAR
AAFIRDEMMPGEWDVCVTSYEMVIKEKSVFKKFHWRYLVIDEAHRIKNEKSKLSEIVREFKSTNRLLLTGTPLQNNLHELWALLNFLLPD
VFNSADDFDSWFDTKNCLGDQKLVERLHAVLKPFLLRRIKTDVEKSLPPKKEIKIYLGLSKMQREXKSRALVTTDLSCKLVEERWYLNPS
VLSRLLWMFTGTRIPXKKTFRKQILLLVTQVQEAVWRLWKKESHSXWLXTKSXXTIISWNWQSSYTKRVISSIVPAARFLGCYSQWTYQH


* Fusion transcript sequences (only coding sequence (CDS) region).
>In-frame_SMARCA1_ENST00000371121_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_1694nt
ATGGAGCAGGACACTGCCGCAGTGGCAGCCACCGTGGCAGCCGCGGATGCGACCGCCACTATCGTGGTCATAGAGGACGAGCAGCCCGGG
CCGTCCACCTCTCAGGAGGAGGGAGCGGCCGCCGCGGCCACCGAAGCCACCGCGGCCACGGAGAAGGGCGAGAAGAAGAAGGAGAAAAAC
GTTTCTTCATTTCAACTCAAACTTGCTGCTAAAGCGCCTAAATCTGAAAAGGAAATGGACCCAGAATATGAAGAGAAAATGAAAGCCGAC
CGAGCAAAGAGATTTGAATTTTTACTGAAGCAGACAGAACTTTTTGCACATTTCATTCAGCCTTCAGCACAGAAATCTCCAACATCTCCA
CTGAACATGAAATTGGGACGTCCCCGAATAAAGAAAGATGAAAAGCAGAGCTTAATTTCTGCTGGAGACTACCGCCATAGGCGCACAGAG
CAAGAAGAAGATGAAGAGCTACTGTCTGAGAGTCGGAAAACATCTAATGTGTGTATTAGATTTGAGGTGTCACCTTCATATGTGAAAGGG
GGGCCACTGAGAGATTATCAGATTCGAGGACTGAATTGGTTGATCTCTTTATATGAAAATGGAGTCAATGGCATTTTGGCTGATGAAATG
GGCCTTGGGAAAACTTTACAAACAATTGCTTTGCTTGGTTACCTGAAACACTACCGAAATATTCCTGGACCTCACATGGTTTTAGTTCCA
AAGTCTACTTTACACAACTGGATGAATGAATTTAAACGATGGGTCCCATCTCTCCGTGTCATTTGTTTTGTCGGAGACAAGGATGCCAGA
GCTGCTTTTATTCGTGATGAAATGATGCCAGGAGAGTGGGATGTTTGCGTTACTTCTTATGAGATGGTAATTAAAGAAAAATCTGTATTC
AAAAAGTTTCACTGGCGATACCTGGTCATTGATGAAGCTCACAGAATAAAGAATGAAAAATCTAAGCTTTCAGAGATTGTTCGTGAGTTC
AAGTCGACTAACCGCTTGCTCCTAACTGGAACACCTTTGCAGAATAACCTGCATGAACTGTGGGCCTTACTCAACTTTTTATTGCCTGAT
GTCTTTAATTCTGCAGATGACTTTGATTCTTGGTTTGACACTAAAAATTGTCTTGGTGATCAAAAACTCGTGGAAAGACTTCATGCAGTT
TTAAAACCATTTTTGTTACGCCGTATAAAAACTGATGTAGAGAAGAGTCTGCCACCTAAAAAGGAAATAAAGATTTACTTGGGGCTGAGT
AAGATGCAACGAGAATGAAAATCGAGAGCCTTGGTTACAACCGACTTATCCTGCAAATTGGTAGAGGAACGGTGGTACCTGAACCCTTCA
GTACTGAGTCGTTTACTCTGGATGTTTACAGGTACAAGGATTCCTTGAAAGAAGACATTCAGAAAGCAGATCTTGTTATTAGTCACGCAG
GTGCAGGAAGCTGTTTGGAGACTCTGGAAAAAGGAAAGCCACTCGTAGTGGTTATAAACGAAAAGTTGATGAACAATCATCAGCTGGAAC
TGGCAAAGCAGCTACACAAAGAGGGTCATCTCTTCTATTGTACCTGCAGCACGCTTCCTGGGCTGTTACAGTCAATGGACTTATCAACAC

>In-frame_SMARCA1_ENST00000371122_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_1694nt
ATGGAGCAGGACACTGCCGCAGTGGCAGCCACCGTGGCAGCCGCGGATGCGACCGCCACTATCGTGGTCATAGAGGACGAGCAGCCCGGG
CCGTCCACCTCTCAGGAGGAGGGAGCGGCCGCCGCGGCCACCGAAGCCACCGCGGCCACGGAGAAGGGCGAGAAGAAGAAGGAGAAAAAC
GTTTCTTCATTTCAACTCAAACTTGCTGCTAAAGCGCCTAAATCTGAAAAGGAAATGGACCCAGAATATGAAGAGAAAATGAAAGCCGAC
CGAGCAAAGAGATTTGAATTTTTACTGAAGCAGACAGAACTTTTTGCACATTTCATTCAGCCTTCAGCACAGAAATCTCCAACATCTCCA
CTGAACATGAAATTGGGACGTCCCCGAATAAAGAAAGATGAAAAGCAGAGCTTAATTTCTGCTGGAGACTACCGCCATAGGCGCACAGAG
CAAGAAGAAGATGAAGAGCTACTGTCTGAGAGTCGGAAAACATCTAATGTGTGTATTAGATTTGAGGTGTCACCTTCATATGTGAAAGGG
GGGCCACTGAGAGATTATCAGATTCGAGGACTGAATTGGTTGATCTCTTTATATGAAAATGGAGTCAATGGCATTTTGGCTGATGAAATG
GGCCTTGGGAAAACTTTACAAACAATTGCTTTGCTTGGTTACCTGAAACACTACCGAAATATTCCTGGACCTCACATGGTTTTAGTTCCA
AAGTCTACTTTACACAACTGGATGAATGAATTTAAACGATGGGTCCCATCTCTCCGTGTCATTTGTTTTGTCGGAGACAAGGATGCCAGA
GCTGCTTTTATTCGTGATGAAATGATGCCAGGAGAGTGGGATGTTTGCGTTACTTCTTATGAGATGGTAATTAAAGAAAAATCTGTATTC
AAAAAGTTTCACTGGCGATACCTGGTCATTGATGAAGCTCACAGAATAAAGAATGAAAAATCTAAGCTTTCAGAGATTGTTCGTGAGTTC
AAGTCGACTAACCGCTTGCTCCTAACTGGAACACCTTTGCAGAATAACCTGCATGAACTGTGGGCCTTACTCAACTTTTTATTGCCTGAT
GTCTTTAATTCTGCAGATGACTTTGATTCTTGGTTTGACACTAAAAATTGTCTTGGTGATCAAAAACTCGTGGAAAGACTTCATGCAGTT
TTAAAACCATTTTTGTTACGCCGTATAAAAACTGATGTAGAGAAGAGTCTGCCACCTAAAAAGGAAATAAAGATTTACTTGGGGCTGAGT
AAGATGCAACGAGAATGAAAATCGAGAGCCTTGGTTACAACCGACTTATCCTGCAAATTGGTAGAGGAACGGTGGTACCTGAACCCTTCA
GTACTGAGTCGTTTACTCTGGATGTTTACAGGTACAAGGATTCCTTGAAAGAAGACATTCAGAAAGCAGATCTTGTTATTAGTCACGCAG
GTGCAGGAAGCTGTTTGGAGACTCTGGAAAAAGGAAAGCCACTCGTAGTGGTTATAAACGAAAAGTTGATGAACAATCATCAGCTGGAAC
TGGCAAAGCAGCTACACAAAGAGGGTCATCTCTTCTATTGTACCTGCAGCACGCTTCCTGGGCTGTTACAGTCAATGGACTTATCAACAC

>In-frame_SMARCA1_ENST00000371123_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_1694nt
ATGGAGCAGGACACTGCCGCAGTGGCAGCCACCGTGGCAGCCGCGGATGCGACCGCCACTATCGTGGTCATAGAGGACGAGCAGCCCGGG
CCGTCCACCTCTCAGGAGGAGGGAGCGGCCGCCGCGGCCACCGAAGCCACCGCGGCCACGGAGAAGGGCGAGAAGAAGAAGGAGAAAAAC
GTTTCTTCATTTCAACTCAAACTTGCTGCTAAAGCGCCTAAATCTGAAAAGGAAATGGACCCAGAATATGAAGAGAAAATGAAAGCCGAC
CGAGCAAAGAGATTTGAATTTTTACTGAAGCAGACAGAACTTTTTGCACATTTCATTCAGCCTTCAGCACAGAAATCTCCAACATCTCCA
CTGAACATGAAATTGGGACGTCCCCGAATAAAGAAAGATGAAAAGCAGAGCTTAATTTCTGCTGGAGACTACCGCCATAGGCGCACAGAG
CAAGAAGAAGATGAAGAGCTACTGTCTGAGAGTCGGAAAACATCTAATGTGTGTATTAGATTTGAGGTGTCACCTTCATATGTGAAAGGG
GGGCCACTGAGAGATTATCAGATTCGAGGACTGAATTGGTTGATCTCTTTATATGAAAATGGAGTCAATGGCATTTTGGCTGATGAAATG
GGCCTTGGGAAAACTTTACAAACAATTGCTTTGCTTGGTTACCTGAAACACTACCGAAATATTCCTGGACCTCACATGGTTTTAGTTCCA
AAGTCTACTTTACACAACTGGATGAATGAATTTAAACGATGGGTCCCATCTCTCCGTGTCATTTGTTTTGTCGGAGACAAGGATGCCAGA
GCTGCTTTTATTCGTGATGAAATGATGCCAGGAGAGTGGGATGTTTGCGTTACTTCTTATGAGATGGTAATTAAAGAAAAATCTGTATTC
AAAAAGTTTCACTGGCGATACCTGGTCATTGATGAAGCTCACAGAATAAAGAATGAAAAATCTAAGCTTTCAGAGATTGTTCGTGAGTTC
AAGTCGACTAACCGCTTGCTCCTAACTGGAACACCTTTGCAGAATAACCTGCATGAACTGTGGGCCTTACTCAACTTTTTATTGCCTGAT
GTCTTTAATTCTGCAGATGACTTTGATTCTTGGTTTGACACTAAAAATTGTCTTGGTGATCAAAAACTCGTGGAAAGACTTCATGCAGTT
TTAAAACCATTTTTGTTACGCCGTATAAAAACTGATGTAGAGAAGAGTCTGCCACCTAAAAAGGAAATAAAGATTTACTTGGGGCTGAGT
AAGATGCAACGAGAATGAAAATCGAGAGCCTTGGTTACAACCGACTTATCCTGCAAATTGGTAGAGGAACGGTGGTACCTGAACCCTTCA
GTACTGAGTCGTTTACTCTGGATGTTTACAGGTACAAGGATTCCTTGAAAGAAGACATTCAGAAAGCAGATCTTGTTATTAGTCACGCAG
GTGCAGGAAGCTGTTTGGAGACTCTGGAAAAAGGAAAGCCACTCGTAGTGGTTATAAACGAAAAGTTGATGAACAATCATCAGCTGGAAC
TGGCAAAGCAGCTACACAAAGAGGGTCATCTCTTCTATTGTACCTGCAGCACGCTTCCTGGGCTGTTACAGTCAATGGACTTATCAACAC


* Fusion transcript sequences (Full-length transcript).
>In-frame_SMARCA1_ENST00000371121_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_2501nt
GCGGAGTGATTCCCCACCCCTGCTCCATCTAGCTCTTTCCAGTGCAGCCACTGCCGCCGCCCAGGAGCCCTCGTCCCCTGCCTTGTCCCC
CTACTCGTTCCCGCTCCCACGGCATGGAGCAGGACACTGCCGCAGTGGCAGCCACCGTGGCAGCCGCGGATGCGACCGCCACTATCGTGG
TCATAGAGGACGAGCAGCCCGGGCCGTCCACCTCTCAGGAGGAGGGAGCGGCCGCCGCGGCCACCGAAGCCACCGCGGCCACGGAGAAGG
GCGAGAAGAAGAAGGAGAAAAACGTTTCTTCATTTCAACTCAAACTTGCTGCTAAAGCGCCTAAATCTGAAAAGGAAATGGACCCAGAAT
ATGAAGAGAAAATGAAAGCCGACCGAGCAAAGAGATTTGAATTTTTACTGAAGCAGACAGAACTTTTTGCACATTTCATTCAGCCTTCAG
CACAGAAATCTCCAACATCTCCACTGAACATGAAATTGGGACGTCCCCGAATAAAGAAAGATGAAAAGCAGAGCTTAATTTCTGCTGGAG
ACTACCGCCATAGGCGCACAGAGCAAGAAGAAGATGAAGAGCTACTGTCTGAGAGTCGGAAAACATCTAATGTGTGTATTAGATTTGAGG
TGTCACCTTCATATGTGAAAGGGGGGCCACTGAGAGATTATCAGATTCGAGGACTGAATTGGTTGATCTCTTTATATGAAAATGGAGTCA
ATGGCATTTTGGCTGATGAAATGGGCCTTGGGAAAACTTTACAAACAATTGCTTTGCTTGGTTACCTGAAACACTACCGAAATATTCCTG
GACCTCACATGGTTTTAGTTCCAAAGTCTACTTTACACAACTGGATGAATGAATTTAAACGATGGGTCCCATCTCTCCGTGTCATTTGTT
TTGTCGGAGACAAGGATGCCAGAGCTGCTTTTATTCGTGATGAAATGATGCCAGGAGAGTGGGATGTTTGCGTTACTTCTTATGAGATGG
TAATTAAAGAAAAATCTGTATTCAAAAAGTTTCACTGGCGATACCTGGTCATTGATGAAGCTCACAGAATAAAGAATGAAAAATCTAAGC
TTTCAGAGATTGTTCGTGAGTTCAAGTCGACTAACCGCTTGCTCCTAACTGGAACACCTTTGCAGAATAACCTGCATGAACTGTGGGCCT
TACTCAACTTTTTATTGCCTGATGTCTTTAATTCTGCAGATGACTTTGATTCTTGGTTTGACACTAAAAATTGTCTTGGTGATCAAAAAC
TCGTGGAAAGACTTCATGCAGTTTTAAAACCATTTTTGTTACGCCGTATAAAAACTGATGTAGAGAAGAGTCTGCCACCTAAAAAGGAAA
TAAAGATTTACTTGGGGCTGAGTAAGATGCAACGAGAATGTACAAGGATTCCTTGAAAGAAGACATTCAGAAAGCAGATCTTGTTATTAG
TCACGCAGGTGCAGGAAGCTGTTTGGAGACTCTGGAAAAAGGAAAGCCACTCGTAGTGGTTATAAACGAAAAGTTGATGAACAATCATCA
GCTGGAACTGGCAAAGCAGCTACACAAAGAGGGTCATCTCTTCTATTGTACCTGCAGCACGCTTCCTGGGCTGTTACAGTCAATGGACTT
ATCAACACTGAAATGTTATCCTCCTGGCCAGCCAGAAAAATTTTCTGCATTTTTGGATAAAGTTGTTGGATTACAAAAATAAACACTAAA
CTCTCAACACTTTAAAAGCAACCCCCAAATTCAACCTATGTAATGTGATTAAATCAAATTAAATACATAATATATATTTACAAAATAATA
TAATTAATAAACTTCCTACATCTATAGAATGTATAGGAAATTTTATGTTGTGCACATTTGCATTGGGTCCAAATCCTAATTGCAGTTTAG
TGAAATTACTAGATTTTTTTCTAATCTTCAGTATGTAGTGAGCATTCACAGGTTTTCTCCTAGAATCTCAAGTGGAATTGGAATCATAAA
AATGAATGAGATTTGAAAACTTTCACAAAGATTATAAATGTAGTTAGTTTGATACTCCTTAGAATAAAAAAATGAAACAGTAACAACTTT
TATGTAAAAAAATTTTACATAAGAGTTAGCATCTTTAGCTTTATAATCTAAGGAACCAAATTTAAAAAATGATGGATTATGCTCTGTGAA
ATGAAAAGTTCAATCATTGCCTAAAAAAGATGATCAAGTTAGTTGATCTCTTGTACTTGGAAAAGCTACTTTTTTCCTAAAGAACAGAGT
GGAGTGGATATATTCACTTTTTTTTTCTAAAACATACAAAGTGATAAAATAATCGTGCCTAATGTCAAAACTTTACTGGTTTGAGAAGAA
TAATCAAAAAGGACTTATACCAATAGGACTTACTATTGTTTTTTAAGGATCTCCTCTCACAGTGGTAATGAAACATTAACTGTAACAGAA

>In-frame_SMARCA1_ENST00000371122_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_2518nt
GAGCGAAGGGGTTGGAAGCGGAGTGATTCCCCACCCCTGCTCCATCTAGCTCTTTCCAGTGCAGCCACTGCCGCCGCCCAGGAGCCCTCG
TCCCCTGCCTTGTCCCCCTACTCGTTCCCGCTCCCACGGCATGGAGCAGGACACTGCCGCAGTGGCAGCCACCGTGGCAGCCGCGGATGC
GACCGCCACTATCGTGGTCATAGAGGACGAGCAGCCCGGGCCGTCCACCTCTCAGGAGGAGGGAGCGGCCGCCGCGGCCACCGAAGCCAC
CGCGGCCACGGAGAAGGGCGAGAAGAAGAAGGAGAAAAACGTTTCTTCATTTCAACTCAAACTTGCTGCTAAAGCGCCTAAATCTGAAAA
GGAAATGGACCCAGAATATGAAGAGAAAATGAAAGCCGACCGAGCAAAGAGATTTGAATTTTTACTGAAGCAGACAGAACTTTTTGCACA
TTTCATTCAGCCTTCAGCACAGAAATCTCCAACATCTCCACTGAACATGAAATTGGGACGTCCCCGAATAAAGAAAGATGAAAAGCAGAG
CTTAATTTCTGCTGGAGACTACCGCCATAGGCGCACAGAGCAAGAAGAAGATGAAGAGCTACTGTCTGAGAGTCGGAAAACATCTAATGT
GTGTATTAGATTTGAGGTGTCACCTTCATATGTGAAAGGGGGGCCACTGAGAGATTATCAGATTCGAGGACTGAATTGGTTGATCTCTTT
ATATGAAAATGGAGTCAATGGCATTTTGGCTGATGAAATGGGCCTTGGGAAAACTTTACAAACAATTGCTTTGCTTGGTTACCTGAAACA
CTACCGAAATATTCCTGGACCTCACATGGTTTTAGTTCCAAAGTCTACTTTACACAACTGGATGAATGAATTTAAACGATGGGTCCCATC
TCTCCGTGTCATTTGTTTTGTCGGAGACAAGGATGCCAGAGCTGCTTTTATTCGTGATGAAATGATGCCAGGAGAGTGGGATGTTTGCGT
TACTTCTTATGAGATGGTAATTAAAGAAAAATCTGTATTCAAAAAGTTTCACTGGCGATACCTGGTCATTGATGAAGCTCACAGAATAAA
GAATGAAAAATCTAAGCTTTCAGAGATTGTTCGTGAGTTCAAGTCGACTAACCGCTTGCTCCTAACTGGAACACCTTTGCAGAATAACCT
GCATGAACTGTGGGCCTTACTCAACTTTTTATTGCCTGATGTCTTTAATTCTGCAGATGACTTTGATTCTTGGTTTGACACTAAAAATTG
TCTTGGTGATCAAAAACTCGTGGAAAGACTTCATGCAGTTTTAAAACCATTTTTGTTACGCCGTATAAAAACTGATGTAGAGAAGAGTCT
GCCACCTAAAAAGGAAATAAAGATTTACTTGGGGCTGAGTAAGATGCAACGAGAATGTACAAGGATTCCTTGAAAGAAGACATTCAGAAA
GCAGATCTTGTTATTAGTCACGCAGGTGCAGGAAGCTGTTTGGAGACTCTGGAAAAAGGAAAGCCACTCGTAGTGGTTATAAACGAAAAG
TTGATGAACAATCATCAGCTGGAACTGGCAAAGCAGCTACACAAAGAGGGTCATCTCTTCTATTGTACCTGCAGCACGCTTCCTGGGCTG
TTACAGTCAATGGACTTATCAACACTGAAATGTTATCCTCCTGGCCAGCCAGAAAAATTTTCTGCATTTTTGGATAAAGTTGTTGGATTA
CAAAAATAAACACTAAACTCTCAACACTTTAAAAGCAACCCCCAAATTCAACCTATGTAATGTGATTAAATCAAATTAAATACATAATAT
ATATTTACAAAATAATATAATTAATAAACTTCCTACATCTATAGAATGTATAGGAAATTTTATGTTGTGCACATTTGCATTGGGTCCAAA
TCCTAATTGCAGTTTAGTGAAATTACTAGATTTTTTTCTAATCTTCAGTATGTAGTGAGCATTCACAGGTTTTCTCCTAGAATCTCAAGT
GGAATTGGAATCATAAAAATGAATGAGATTTGAAAACTTTCACAAAGATTATAAATGTAGTTAGTTTGATACTCCTTAGAATAAAAAAAT
GAAACAGTAACAACTTTTATGTAAAAAAATTTTACATAAGAGTTAGCATCTTTAGCTTTATAATCTAAGGAACCAAATTTAAAAAATGAT
GGATTATGCTCTGTGAAATGAAAAGTTCAATCATTGCCTAAAAAAGATGATCAAGTTAGTTGATCTCTTGTACTTGGAAAAGCTACTTTT
TTCCTAAAGAACAGAGTGGAGTGGATATATTCACTTTTTTTTTCTAAAACATACAAAGTGATAAAATAATCGTGCCTAATGTCAAAACTT
TACTGGTTTGAGAAGAATAATCAAAAAGGACTTATACCAATAGGACTTACTATTGTTTTTTAAGGATCTCCTCTCACAGTGGTAATGAAA

>In-frame_SMARCA1_ENST00000371123_chrX_128633709_-_ALG13_ENST00000371979_chrX_110925464_+_2518nt
GAGCGAAGGGGTTGGAAGCGGAGTGATTCCCCACCCCTGCTCCATCTAGCTCTTTCCAGTGCAGCCACTGCCGCCGCCCAGGAGCCCTCG
TCCCCTGCCTTGTCCCCCTACTCGTTCCCGCTCCCACGGCATGGAGCAGGACACTGCCGCAGTGGCAGCCACCGTGGCAGCCGCGGATGC
GACCGCCACTATCGTGGTCATAGAGGACGAGCAGCCCGGGCCGTCCACCTCTCAGGAGGAGGGAGCGGCCGCCGCGGCCACCGAAGCCAC
CGCGGCCACGGAGAAGGGCGAGAAGAAGAAGGAGAAAAACGTTTCTTCATTTCAACTCAAACTTGCTGCTAAAGCGCCTAAATCTGAAAA
GGAAATGGACCCAGAATATGAAGAGAAAATGAAAGCCGACCGAGCAAAGAGATTTGAATTTTTACTGAAGCAGACAGAACTTTTTGCACA
TTTCATTCAGCCTTCAGCACAGAAATCTCCAACATCTCCACTGAACATGAAATTGGGACGTCCCCGAATAAAGAAAGATGAAAAGCAGAG
CTTAATTTCTGCTGGAGACTACCGCCATAGGCGCACAGAGCAAGAAGAAGATGAAGAGCTACTGTCTGAGAGTCGGAAAACATCTAATGT
GTGTATTAGATTTGAGGTGTCACCTTCATATGTGAAAGGGGGGCCACTGAGAGATTATCAGATTCGAGGACTGAATTGGTTGATCTCTTT
ATATGAAAATGGAGTCAATGGCATTTTGGCTGATGAAATGGGCCTTGGGAAAACTTTACAAACAATTGCTTTGCTTGGTTACCTGAAACA
CTACCGAAATATTCCTGGACCTCACATGGTTTTAGTTCCAAAGTCTACTTTACACAACTGGATGAATGAATTTAAACGATGGGTCCCATC
TCTCCGTGTCATTTGTTTTGTCGGAGACAAGGATGCCAGAGCTGCTTTTATTCGTGATGAAATGATGCCAGGAGAGTGGGATGTTTGCGT
TACTTCTTATGAGATGGTAATTAAAGAAAAATCTGTATTCAAAAAGTTTCACTGGCGATACCTGGTCATTGATGAAGCTCACAGAATAAA
GAATGAAAAATCTAAGCTTTCAGAGATTGTTCGTGAGTTCAAGTCGACTAACCGCTTGCTCCTAACTGGAACACCTTTGCAGAATAACCT
GCATGAACTGTGGGCCTTACTCAACTTTTTATTGCCTGATGTCTTTAATTCTGCAGATGACTTTGATTCTTGGTTTGACACTAAAAATTG
TCTTGGTGATCAAAAACTCGTGGAAAGACTTCATGCAGTTTTAAAACCATTTTTGTTACGCCGTATAAAAACTGATGTAGAGAAGAGTCT
GCCACCTAAAAAGGAAATAAAGATTTACTTGGGGCTGAGTAAGATGCAACGAGAATGTACAAGGATTCCTTGAAAGAAGACATTCAGAAA
GCAGATCTTGTTATTAGTCACGCAGGTGCAGGAAGCTGTTTGGAGACTCTGGAAAAAGGAAAGCCACTCGTAGTGGTTATAAACGAAAAG
TTGATGAACAATCATCAGCTGGAACTGGCAAAGCAGCTACACAAAGAGGGTCATCTCTTCTATTGTACCTGCAGCACGCTTCCTGGGCTG
TTACAGTCAATGGACTTATCAACACTGAAATGTTATCCTCCTGGCCAGCCAGAAAAATTTTCTGCATTTTTGGATAAAGTTGTTGGATTA
CAAAAATAAACACTAAACTCTCAACACTTTAAAAGCAACCCCCAAATTCAACCTATGTAATGTGATTAAATCAAATTAAATACATAATAT
ATATTTACAAAATAATATAATTAATAAACTTCCTACATCTATAGAATGTATAGGAAATTTTATGTTGTGCACATTTGCATTGGGTCCAAA
TCCTAATTGCAGTTTAGTGAAATTACTAGATTTTTTTCTAATCTTCAGTATGTAGTGAGCATTCACAGGTTTTCTCCTAGAATCTCAAGT
GGAATTGGAATCATAAAAATGAATGAGATTTGAAAACTTTCACAAAGATTATAAATGTAGTTAGTTTGATACTCCTTAGAATAAAAAAAT
GAAACAGTAACAACTTTTATGTAAAAAAATTTTACATAAGAGTTAGCATCTTTAGCTTTATAATCTAAGGAACCAAATTTAAAAAATGAT
GGATTATGCTCTGTGAAATGAAAAGTTCAATCATTGCCTAAAAAAGATGATCAAGTTAGTTGATCTCTTGTACTTGGAAAAGCTACTTTT
TTCCTAAAGAACAGAGTGGAGTGGATATATTCACTTTTTTTTTCTAAAACATACAAAGTGATAAAATAATCGTGCCTAATGTCAAAACTT
TACTGGTTTGAGAAGAATAATCAAAAAGGACTTATACCAATAGGACTTACTATTGTTTTTTAAGGATCTCCTCTCACAGTGGTAATGAAA


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FusionGenePPI for SMARCA1_ALG13


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page

.

check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors
SMARCA1PARP1, PGR, HIST1H3A, BPTF, RBBP7, RBBP4, USF1, ARID1B, SETD1A, GRK5, SMARCA5, SMARCC2, SMARCC1, SMARCA4, RUVBL1, DDX21, TFPT, C17orf49, EED, RPS2, DEF6, NTRK1, POLE3, IFI16, MAX, RBPJ, TEAD2, FOXC1, FOXE1, FOXG1, FOXJ2, FOXK2, FOXL1, FOXQ1, NANOG, TMEM128, IDO2, C1orf106, RFXANK, NFATC2IP, G3BP1ALG13ATN1, ATXN1L, RERE, SAV1, RBFOX1, PITX1, HOXA1, MAPKBP1, CGRRF1, RHOU, EGFL6, PLOD1, ELAVL2, PRG2, WDFY3, CDC16, PLSCR4


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for SMARCA1_ALG13


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for SMARCA1_ALG13


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneALG13C3550904EPILEPTIC ENCEPHALOPATHY, EARLY INFANTILE, 362UNIPROT