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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: 2465

FusionGeneSummary for ARHGAP44_SHMT1

check button Fusion gene summary
Fusion gene informationFusion gene name: ARHGAP44_SHMT1
Fusion gene ID: 2465
HgeneTgene
Gene symbol

ARHGAP44

SHMT1

Gene ID

9912

6470

Gene nameRho GTPase activating protein 44serine hydroxymethyltransferase 1
SynonymsNPC-A-10|RICH2CSHMT|SHMT
Cytomap

17p12

17p11.2

Type of geneprotein-codingprotein-coding
Descriptionrho GTPase-activating protein 44Rho-type GTPase-activating protein RICH2RhoGAP interacting with CIP4 homologs protein 2rho GTPase-activating protein RICH2serine hydroxymethyltransferase, cytosoliccytoplasmic serine hydroxymethyltransferaseglycine hydroxymethyltransferaseserine hydroxymethyltransferase 1 (soluble)serine methylase
Modification date2018052320180519
UniProtAcc

Q17R89

P34896

Ensembl transtripts involved in fusion geneENST00000379672, ENST00000340825, 
ENST00000262444, ENST00000578087, 
ENST00000316694, ENST00000352886, 
ENST00000539052, ENST00000354098, 
Fusion gene scores* DoF score4 X 4 X 3=483 X 2 X 3=18
# samples 44
** MAII scorelog2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/18*10)=1.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: ARHGAP44 [Title/Abstract] AND SHMT1 [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
TgeneSHMT1

GO:0006544

glycine metabolic process

24698160

TgeneSHMT1

GO:0006563

L-serine metabolic process

24698160

TgeneSHMT1

GO:0006565

L-serine catabolic process

17482557

TgeneSHMT1

GO:0009113

purine nucleobase biosynthetic process

11516159

TgeneSHMT1

GO:0017148

negative regulation of translation

10995219

TgeneSHMT1

GO:0035999

tetrahydrofolate interconversion

24698160

TgeneSHMT1

GO:0046653

tetrahydrofolate metabolic process

24698160

TgeneSHMT1

GO:0046655

folic acid metabolic process

11278996

TgeneSHMT1

GO:0051262

protein tetramerization

9753690

TgeneSHMT1

GO:0051289

protein homotetramerization

24698160

TgeneSHMT1

GO:1904482

cellular response to tetrahydrofolate

24698160


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
TCGALDSARCTCGA-DX-A1KY-01AARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
* 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
5CDS-5UTRENST00000379672ENST00000316694ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000379672ENST00000352886ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000379672ENST00000539052ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000379672ENST00000354098ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000340825ENST00000316694ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000340825ENST00000352886ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000340825ENST00000539052ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000340825ENST00000354098ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000262444ENST00000316694ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000262444ENST00000352886ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000262444ENST00000539052ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
5CDS-5UTRENST00000262444ENST00000354098ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
intron-5UTRENST00000578087ENST00000316694ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
intron-5UTRENST00000578087ENST00000352886ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
intron-5UTRENST00000578087ENST00000539052ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-
intron-5UTRENST00000578087ENST00000354098ARHGAP44chr17

12799828

+SHMT1chr17

18259314

-

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FusionProtFeatures for ARHGAP44_SHMT1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
ARHGAP44

Q17R89

SHMT1

P34896

GTPase-activating protein (GAP) that stimulates theGTPase activity of Rho-type GTPases. Thereby, controls Rho-typeGTPases cycling between their active GTP-bound and inactive GDP-bound states. May act as a GAP for CDC42 and RAC1. Endosomalrecycling protein which, in association with SHANK3, is involvedin synaptic plasticity. Promotes GRIA1 exocytosis from recyclingendosomes and spine morphological changes associated to long-termpotentiation. {ECO:0000269|PubMed:11431473}. Interconversion of serine and glycine (PubMed:8505317,PubMed:24698160). {ECO:0000269|PubMed:24698160,ECO:0000269|PubMed:8505317}.

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 ARHGAP44_SHMT1


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 ARHGAP44_SHMT1


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
ARHGAP44HN1, CDC42, RAC1, TRIP10, TIPRL, ARHGAP17, FNBP1L, SH3BP1, SH3KBP1, CD2AP, CASP5, PPP3CC, WDTC1, VPS26A, SLC9A3R2SHMT1PRSS23, DLEU1, PIM1, ZC3H4, MCAT, HSPA1L, DEDD, APEH, CTTN, CARS, FAM129B, GARS, GSPT2, HARS, HIST1H4A, IDE, PAWR, ATP6V1C1, C18orf25, PBDC1, GTF2F2, TSN, TTC1, XPO5, SHMT2, SNX2, SNX6, STAT1, VPS29, MAPK9, SHMT1, SULT1A3, ARFIP1, ATIC, HSPE1, ITPA, PGK2, PAICS, PPAT, PRRC1, SMAD4, STXBP1, DPYSL5, ARNT, C7orf60


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 ARHGAP44_SHMT1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneSHMT1P34896DB00114Pyridoxal PhosphateSerine hydroxymethyltransferase, cytosolicsmall moleculeapproved|investigational|nutraceutical
TgeneSHMT1P34896DB00145GlycineSerine hydroxymethyltransferase, cytosolicsmall moleculeapproved|nutraceutical|vet_approved

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RelatedDiseases for ARHGAP44_SHMT1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneSHMT1C0024305Lymphoma, Non-Hodgkin1CTD_human
TgeneSHMT1C0027765nervous system disorder1CTD_human
TgeneSHMT1C0036341Schizophrenia1PSYGENET
TgeneSHMT1C0041755Adverse reaction to drug1CTD_human
TgeneSHMT1C1458155Mammary Neoplasms1CTD_human