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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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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 22652

FusionGeneSummary for MSL1_RBM28

check button Fusion gene summary
Fusion gene informationFusion gene name: MSL1_RBM28
Fusion gene ID: 22652
HgeneTgene
Gene symbol

MSL1

RBM28

Gene ID

339287

55131

Gene namemale specific lethal 1 homologRNA binding motif protein 28
SynonymsMSL-1|hMSL1ANES
Cytomap

17q21.1

7q32.1

Type of geneprotein-codingprotein-coding
Descriptionmale-specific lethal 1 homologMSL1-like 1male-specific lethal 1-like 1male-specific lethal-1 homolog 1RNA-binding protein 282810480G15Rik
Modification date2018052320180523
UniProtAcc

Q68DK7

Q9NW13

Ensembl transtripts involved in fusion geneENST00000398532, ENST00000577454, 
ENST00000578648, ENST00000579565, 
ENST00000223073, ENST00000481788, 
ENST00000415472, 
Fusion gene scores* DoF score4 X 4 X 2=323 X 3 X 3=27
# samples 43
** MAII scorelog2(4/32*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: MSL1 [Title/Abstract] AND RBM28 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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
HgeneMSL1

GO:0043984

histone H4-K16 acetylation

20018852


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
ChiTaRS3.1BQ336160MSL1chr17

38292795

+RBM28chr7

127979769

+
* 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
3UTR-3CDSENST00000398532ENST00000223073MSL1chr17

38292795

+RBM28chr7

127979769

+
3UTR-intronENST00000398532ENST00000481788MSL1chr17

38292795

+RBM28chr7

127979769

+
3UTR-intronENST00000398532ENST00000415472MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-3CDSENST00000577454ENST00000223073MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-intronENST00000577454ENST00000481788MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-intronENST00000577454ENST00000415472MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-3CDSENST00000578648ENST00000223073MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-intronENST00000578648ENST00000481788MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-intronENST00000578648ENST00000415472MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-3CDSENST00000579565ENST00000223073MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-intronENST00000579565ENST00000481788MSL1chr17

38292795

+RBM28chr7

127979769

+
intron-intronENST00000579565ENST00000415472MSL1chr17

38292795

+RBM28chr7

127979769

+

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FusionProtFeatures for MSL1_RBM28


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
MSL1

Q68DK7

RBM28

Q9NW13

Component of histone acetyltransferase complexresponsible for the majority of histone H4 acetylation at 'Lys-16'(H4K16ac) which is implicated in the formation of higher-orderchromatin structure. Greatly enhances MSL2 E3 ubiquitin ligaseactivity, promoting monoubiquitination of histone H2B at 'Lys-34'(H2BK34Ub). This modification in turn stimulates histone H3methylation at 'Lys-4' (H3K4me) and 'Lys-79' (H3K79me) and leadsto gene activation, including that of HOXA9 and MEIS1. In the MSLcomplex, acts as a scaffold to tether MSL3 and KAT8 together forenzymatic activity regulation. {ECO:0000269|PubMed:16227571,ECO:0000269|PubMed:21726816, ECO:0000269|PubMed:22547026}. Nucleolar component of the spliceosomalribonucleoprotein complexes. {ECO:0000269|PubMed:17081119}.

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

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for MSL1_RBM28


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.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for MSL1_RBM28


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


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 MSL1_RBM28


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 MSL1_RBM28


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneRBM28C2677535Alopecia, Neurologic Defects, and Endocrinopathy Syndrome1CTD_human;ORPHANET;UNIPROT