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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: 24026

FusionGeneSummary for NELFB_NELFB

check button Fusion gene summary
Fusion gene informationFusion gene name: NELFB_NELFB
Fusion gene ID: 24026
HgeneTgene
Gene symbol

NELFB

NELFB

Gene ID

25920

25920

Gene namenegative elongation factor complex member Bnegative elongation factor complex member B
SynonymsCOBRA1|NELF-BCOBRA1|NELF-B
Cytomap

9q34.3

9q34.3

Type of geneprotein-codingprotein-coding
Descriptionnegative elongation factor Bcofactor of BRCA1negative elongation factor protein Bnegative elongation factor Bcofactor of BRCA1negative elongation factor protein B
Modification date2018052320180523
UniProtAcc

Q8WX92

Q8WX92

Ensembl transtripts involved in fusion geneENST00000343053, ENST00000343053, 
Fusion gene scores* DoF score3 X 3 X 3=277 X 7 X 3=147
# samples 38
** MAII scorelog2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(8/147*10)=-0.877744249949002
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: NELFB [Title/Abstract] AND NELFB [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

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
ChiTaRS3.1BG827779NELFBchr9

140166977

-NELFBchr9

140167039

+
* 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
Frame-shiftENST00000343053ENST00000343053NELFBchr9

140166977

-NELFBchr9

140167039

+

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FusionProtFeatures for NELFB_NELFB


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

Q8WX92

NELFB

Q8WX92

Essential component of the NELF complex, a complex thatnegatively regulates the elongation of transcription by RNApolymerase II. The NELF complex, which acts via an associationwith the DSIF complex and causes transcriptional pausing, iscounteracted by the P-TEFb kinase complex. The NELF complex isinvolved in HIV-1 latency possibly involving recruitment of PCF11to paused RNA polymerase II. Binds RNA which may help to stabilizethe NELF complex on nucleic acid. In vitro, binds weakly to theHIV-1 TAR RNA which is located in the long terminal repeat (LTR)of HIV-1. May be able to induce chromatin unfolding.{ECO:0000269|PubMed:10199401, ECO:0000269|PubMed:12612062,ECO:0000269|PubMed:23884411, ECO:0000269|PubMed:27282391}. Essential component of the NELF complex, a complex thatnegatively regulates the elongation of transcription by RNApolymerase II. The NELF complex, which acts via an associationwith the DSIF complex and causes transcriptional pausing, iscounteracted by the P-TEFb kinase complex. The NELF complex isinvolved in HIV-1 latency possibly involving recruitment of PCF11to paused RNA polymerase II. Binds RNA which may help to stabilizethe NELF complex on nucleic acid. In vitro, binds weakly to theHIV-1 TAR RNA which is located in the long terminal repeat (LTR)of HIV-1. May be able to induce chromatin unfolding.{ECO:0000269|PubMed:10199401, ECO:0000269|PubMed:12612062,ECO:0000269|PubMed:23884411, ECO:0000269|PubMed:27282391}.

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 NELFB_NELFB


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 NELFB_NELFB


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 NELFB_NELFB


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 NELFB_NELFB


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource