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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:CD74-SGK1 (FusionGDB2 ID:14691)

Fusion Gene Summary for CD74-SGK1

check button Fusion gene summary
Fusion gene informationFusion gene name: CD74-SGK1
Fusion gene ID: 14691
HgeneTgene
Gene symbol

CD74

SGK1

Gene ID

972

6446

Gene nameCD74 moleculeserum/glucocorticoid regulated kinase 1
SynonymsDHLAG|HLADG|II|Ia-GAMMA|p33SGK
Cytomap

5q33.1

6q23.2

Type of geneprotein-codingprotein-coding
DescriptionHLA class II histocompatibility antigen gamma chainCD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)CD74 molecule, major histocompatibility complex, class II invariant chainHLA-DR antigens-associated serine/threonine-protein kinase Sgk1Sgk1 variant i3serine/threonine protein kinase SGK
Modification date2020031320200329
UniProtAcc

P04233

.
Ensembl transtripts involved in fusion geneENST00000377795, ENST00000353334, 
ENST00000524315, ENST00000009530, 
ENST00000367858, ENST00000524929, 
ENST00000413996, ENST00000237305, 
ENST00000367857, ENST00000528577, 
ENST00000475719, ENST00000489458, 
Fusion gene scores* DoF score43 X 51 X 20=438609 X 11 X 7=693
# samples 5914
** MAII scorelog2(59/43860*10)=-6.21604704731175
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(14/693*10)=-2.30742852519225
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CD74 [Title/Abstract] AND SGK1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCD74(149781575)-SGK1(134493871), # samples:1
CD74(149785844)-SGK1(134495708), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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
HgeneCD74

GO:0001516

prostaglandin biosynthetic process

12782713

HgeneCD74

GO:0001934

positive regulation of protein phosphorylation

24942581

HgeneCD74

GO:0002792

negative regulation of peptide secretion

19849849

HgeneCD74

GO:0033674

positive regulation of kinase activity

24942581

HgeneCD74

GO:0043066

negative regulation of apoptotic process

12782713

HgeneCD74

GO:0043123

positive regulation of I-kappaB kinase/NF-kappaB signaling

24942581

HgeneCD74

GO:0043410

positive regulation of MAPK cascade

24942581

HgeneCD74

GO:0043518

negative regulation of DNA damage response, signal transduction by p53 class mediator

17045821

HgeneCD74

GO:0045657

positive regulation of monocyte differentiation

24942581

HgeneCD74

GO:0045893

positive regulation of transcription, DNA-templated

24942581

HgeneCD74

GO:0046598

positive regulation of viral entry into host cell

24942581

HgeneCD74

GO:0050731

positive regulation of peptidyl-tyrosine phosphorylation

17045821

HgeneCD74

GO:0070374

positive regulation of ERK1 and ERK2 cascade

17045821|24942581


check buttonFusion gene breakpoints across CD74 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across SGK1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4CESCTCGA-DG-A2KM-01ACD74chr5

149781575

+SGK1chr6

134493871

-
ChiTaRS5.0N/ABP270914CD74chr5

149785844

-SGK1chr6

134495708

-


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Fusion Gene ORF analysis for CD74-SGK1

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
intron-3CDSENST00000377795ENST00000367858CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000377795ENST00000524929CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000377795ENST00000413996CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000377795ENST00000237305CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000377795ENST00000367857CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000377795ENST00000528577CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000377795ENST00000475719CD74chr5

149781575

+SGK1chr6

134493871

-
intron-5UTRENST00000377795ENST00000489458CD74chr5

149781575

+SGK1chr6

134493871

-
intron-3CDSENST00000353334ENST00000367858CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000353334ENST00000524929CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000353334ENST00000413996CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000353334ENST00000237305CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000353334ENST00000367857CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000353334ENST00000528577CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000353334ENST00000475719CD74chr5

149781575

+SGK1chr6

134493871

-
intron-5UTRENST00000353334ENST00000489458CD74chr5

149781575

+SGK1chr6

134493871

-
intron-3CDSENST00000524315ENST00000367858CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000524315ENST00000524929CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000524315ENST00000413996CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000524315ENST00000237305CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000524315ENST00000367857CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000524315ENST00000528577CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000524315ENST00000475719CD74chr5

149781575

+SGK1chr6

134493871

-
intron-5UTRENST00000524315ENST00000489458CD74chr5

149781575

+SGK1chr6

134493871

-
intron-3CDSENST00000009530ENST00000367858CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000009530ENST00000524929CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000009530ENST00000413996CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000009530ENST00000237305CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000009530ENST00000367857CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000009530ENST00000528577CD74chr5

149781575

+SGK1chr6

134493871

-
intron-intronENST00000009530ENST00000475719CD74chr5

149781575

+SGK1chr6

134493871

-
intron-5UTRENST00000009530ENST00000489458CD74chr5

149781575

+SGK1chr6

134493871

-
intron-3CDSENST00000377795ENST00000367858CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000377795ENST00000524929CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000377795ENST00000413996CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000377795ENST00000237305CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000377795ENST00000367857CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000377795ENST00000528577CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000377795ENST00000475719CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000377795ENST00000489458CD74chr5

149785844

-SGK1chr6

134495708

-
intron-3CDSENST00000353334ENST00000367858CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000353334ENST00000524929CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000353334ENST00000413996CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000353334ENST00000237305CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000353334ENST00000367857CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000353334ENST00000528577CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000353334ENST00000475719CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000353334ENST00000489458CD74chr5

149785844

-SGK1chr6

134495708

-
intron-3CDSENST00000524315ENST00000367858CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000524315ENST00000524929CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000524315ENST00000413996CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000524315ENST00000237305CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000524315ENST00000367857CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000524315ENST00000528577CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000524315ENST00000475719CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000524315ENST00000489458CD74chr5

149785844

-SGK1chr6

134495708

-
intron-3CDSENST00000009530ENST00000367858CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000009530ENST00000524929CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000009530ENST00000413996CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000009530ENST00000237305CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000009530ENST00000367857CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000009530ENST00000528577CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000009530ENST00000475719CD74chr5

149785844

-SGK1chr6

134495708

-
intron-intronENST00000009530ENST00000489458CD74chr5

149785844

-SGK1chr6

134495708

-

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for CD74-SGK1


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for CD74-SGK1


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CD74

P04233

.
FUNCTION: Plays a critical role in MHC class II antigen processing by stabilizing peptide-free class II alpha/beta heterodimers in a complex soon after their synthesis and directing transport of the complex from the endoplasmic reticulum to the endosomal/lysosomal system where the antigen processing and binding of antigenic peptides to MHC class II takes place. Serves as cell surface receptor for the cytokine MIF.; FUNCTION: [Class-II-associated invariant chain peptide]: Binds to the peptide-binding site of MHC class II alpha/beta heterodimers forming an alpha-beta-CLIP complex, thereby preventing the loading of antigenic peptides to the MHC class II complex until its release by HLA-DM in the endosome. {ECO:0000269|PubMed:1448172}.; FUNCTION: [Isoform p41]: Stabilizes the conformation of mature CTSL by binding to its active site and serving as a chaperone to help maintain a pool of mature enzyme in endocytic compartments and extracellular space of antigen-presenting cells (APCs). Has antiviral activity by stymieing the endosomal entry of Ebola virus and coronaviruses, including SARS-CoV-2 (PubMed:32855215). Disrupts cathepsin-mediated Ebola virus glycoprotein processing, which prevents viral fusion and entry. This antiviral activity is specific to p41 isoform (PubMed:32855215). {ECO:0000250|UniProtKB:P04441, ECO:0000269|PubMed:32855215}.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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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Fusion Gene Sequence for CD74-SGK1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for CD74-SGK1


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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Related Drugs for CD74-SGK1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for CD74-SGK1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCD74C0006142Malignant neoplasm of breast1CTD_human
HgeneCD74C0007131Non-Small Cell Lung Carcinoma1CTD_human
HgeneCD74C0023893Liver Cirrhosis, Experimental1CTD_human
HgeneCD74C0162557Liver Failure, Acute1CTD_human
HgeneCD74C0678222Breast Carcinoma1CTD_human
HgeneCD74C1257931Mammary Neoplasms, Human1CTD_human
HgeneCD74C1458155Mammary Neoplasms1CTD_human
HgeneCD74C4704874Mammary Carcinoma, Human1CTD_human
TgeneSGK1C0007097Carcinoma1CTD_human
TgeneSGK1C0011882Diabetic Neuropathies1CTD_human
TgeneSGK1C0023467Leukemia, Myelocytic, Acute1CTD_human
TgeneSGK1C0024667Animal Mammary Neoplasms1CTD_human
TgeneSGK1C0024668Mammary Neoplasms, Experimental1CTD_human
TgeneSGK1C0026998Acute Myeloid Leukemia, M11CTD_human
TgeneSGK1C0041696Unipolar Depression1PSYGENET
TgeneSGK1C0041948Uremia1CTD_human
TgeneSGK1C0205696Anaplastic carcinoma1CTD_human
TgeneSGK1C0205697Carcinoma, Spindle-Cell1CTD_human
TgeneSGK1C0205698Undifferentiated carcinoma1CTD_human
TgeneSGK1C0205699Carcinomatosis1CTD_human
TgeneSGK1C0271673Symmetric Diabetic Proximal Motor Neuropathy1CTD_human
TgeneSGK1C0271674Asymmetric Diabetic Proximal Motor Neuropathy1CTD_human
TgeneSGK1C0271678Diabetic Mononeuropathy1CTD_human
TgeneSGK1C0271680Diabetic Polyneuropathies1CTD_human
TgeneSGK1C0271685Diabetic Amyotrophy1CTD_human
TgeneSGK1C0271686Diabetic Autonomic Neuropathy1CTD_human
TgeneSGK1C0393835Diabetic Asymmetric Polyneuropathy1CTD_human
TgeneSGK1C0751074Diabetic Neuralgia1CTD_human
TgeneSGK1C1257925Mammary Carcinoma, Animal1CTD_human
TgeneSGK1C1269683Major Depressive Disorder1PSYGENET
TgeneSGK1C1879321Acute Myeloid Leukemia (AML-M2)1CTD_human