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NELFB Gene(Protein Coding)

Negative Elongation Factor Complex Member B

GCID:
GC09P137255
GIFtS:
48
Genes Participants
UDN Logo

Aliases for NELFB Gene

Aliases for NELFB Gene

  • Negative Elongation Factor Complex Member B 2 3 5
  • Cofactor Of BRCA1 2 3 4
  • COBRA1 3 4
  • NELF-B 3 4
  • Negative Elongation Factor Protein B 3
  • Negative Elongation Factor B 3
  • KIAA1182 4

External Ids for NELFB Gene

Previous HGNC Symbols for NELFB Gene

  • COBRA1

Previous GeneCards Identifiers for NELFB Gene

  • GC09P140150

Summaries for NELFB Gene

Entrez Gene Summary for NELFB Gene

  • NELFB is a subunit of negative elongation factor (NELF), which also includes NELFA (WHSC2; MIM 606026), either NELFC or NELFD (TH1L; MIM 605297), and NELFE (RDBP; MIM 154040). NELF acts with DRB sensitivity-inducing factor (DSIF), a heterodimer of SPT4 (SUPT4H1; MIM 603555) and SPT5 (SUPT5H; MIM 602102), to cause transcriptional pausing of RNA polymerase II (see MIM 180660) (Narita et al., 2003 [PubMed 12612062]).[supplied by OMIM, Mar 2008]

GeneCards Summary for NELFB Gene

NELFB (Negative Elongation Factor Complex Member B) is a Protein Coding gene. Among its related pathways are HIV Life Cycle and Formation of HIV elongation complex in the absence of HIV Tat.

UniProtKB/Swiss-Prot for NELFB Gene

  • Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex. The NELF complex is involved in HIV-1 latency possibly involving recruitment of PCF11 to paused RNA polymerase II. Binds RNA which may help to stabilize the NELF complex on nucleic acid. In vitro, binds weakly to the HIV-1 TAR RNA which is located in the long terminal repeat (LTR) of HIV-1. May be able to induce chromatin unfolding.

Gene Wiki entry for NELFB Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NELFB Gene

Genomics for NELFB Gene

Products:

  1. Regulatory Element

Regulatory Elements for NELFB Gene

Enhancers for NELFB Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH09G137267 1.5 Ensembl ENCODE dbSUPER 24.1 +13.7 13688 2.3 HDGF PKNOX1 ARNT WRNIP1 SIN3A ZNF48 TCF12 NCOA1 ZNF592 KAT8 NELFB STPG3 TOR4A
GH09G137273 1.2 Ensembl ENCODE dbSUPER 23.8 +19.3 19253 1.2 SCRT1 PKNOX1 KLF1 CEBPB SP2 KLF17 POLR2A SCRT2 ZNF600 ZNF18 NELFB TOR4A
GH09G137253 1.1 ENCODE 25.4 +0.1 58 3.3 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF207 ZNF143 NELFB ANAPC2 SNHG7 LOC100418938 DPH7 NDOR1 MAN1B1 TOR4A
GH09G137233 1.8 FANTOM5 ENCODE dbSUPER 9 -16.9 -16868 9.9 MLX CREB3L1 AGO1 FEZF1 DMAP1 YY1 ZNF416 ZNF143 ZNF263 SP3 NDOR1 DPH7 TMEM203 NELFB LCN15 ABCA2 TOR4A UAP1L1 RNF224 CYSRT1
GH09G137265 0.6 dbSUPER 23.8 +11.4 11447 1.9 ZNF263 NFIC KLF1 NFIB POLR2A ZIC2 RBFOX2 NELFB TUBB4B SLC34A3 NOXA1 EXD3 TOR4A
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NELFB on UCSC Golden Path with GeneCards custom track

Promoters for NELFB Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000243170 227 1601 PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF143 ZNF207 KLF13 SP3

Genomic Location for NELFB Gene

Chromosome:
9
Start:
137,255,173 bp from pter
End:
137,273,548 bp from pter
Size:
18,376 bases
Orientation:
Plus strand

Genomic View for NELFB Gene

Genes around NELFB on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NELFB Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NELFB Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for NELFB Gene

Proteins for NELFB Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for NELFB Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WX92-NELFB_HUMAN
    Recommended name:
    Negative elongation factor B
    Protein Accession:
    Q8WX92
    Secondary Accessions:
    • A2BFA3
    • Q96EW5
    • Q9H9R4
    • Q9ULN8
    • Q9Y3W0

    Protein attributes for NELFB Gene

    Size:
    580 amino acids
    Molecular mass:
    65697 Da
    Quaternary structure:
    • The NELF complex is composed of NELFA, NELFB, NELFCD (isoform NELF-C or isoform NELF-D) and NELFE; the N-terminus of NELFB binds to the NELFA:NELFCD subcomplex. Interacts with the first BRCT repeat of BRCA1. Interacts with KIAA1191.
    SequenceCaution:
    • Sequence=AAH11892.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB14157.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAB43381.3; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for NELFB Gene

Protein Expression for NELFB Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for NELFB Gene

  • Ubiquitination at Lys99 and Lys135
  • Modification sites at PhosphoSitePlus

Other Protein References for NELFB Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for NELFB (COBRA1)
  • Abcam antibodies for NELFB

No data available for DME Specific Peptides for NELFB Gene

Domains & Families for NELFB Gene

Protein Domains for NELFB Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for NELFB Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8WX92

UniProtKB/Swiss-Prot:

NELFB_HUMAN :
  • Belongs to the NELF-B family.
Family:
  • Belongs to the NELF-B family.
genes like me logo Genes that share domains with NELFB: view

No data available for Gene Families for NELFB Gene

Function for NELFB Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for NELFB Gene

UniProtKB/Swiss-Prot Function:
Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex. The NELF complex is involved in HIV-1 latency possibly involving recruitment of PCF11 to paused RNA polymerase II. Binds RNA which may help to stabilize the NELF complex on nucleic acid. In vitro, binds weakly to the HIV-1 TAR RNA which is located in the long terminal repeat (LTR) of HIV-1. May be able to induce chromatin unfolding.

Gene Ontology (GO) - Molecular Function for NELFB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 11739404
genes like me logo Genes that share ontologies with NELFB: view
genes like me logo Genes that share phenotypes with NELFB: view

Animal Models for NELFB Gene

MGI Knock Outs for NELFB:

Animal Model Products

CRISPR Products

miRNA for NELFB Gene

miRTarBase miRNAs that target NELFB

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NELFB Gene

Localization for NELFB Gene

Subcellular locations from UniProtKB/Swiss-Prot for NELFB Gene

Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NELFB gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for NELFB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA --
GO:0032021 NELF complex IDA 12612062
genes like me logo Genes that share ontologies with NELFB: view

Pathways & Interactions for NELFB Gene

genes like me logo Genes that share pathways with NELFB: view

Gene Ontology (GO) - Biological Process for NELFB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription from RNA polymerase II promoter TAS --
GO:0006368 transcription elongation from RNA polymerase II promoter TAS --
GO:0034244 negative regulation of transcription elongation from RNA polymerase II promoter IBA --
genes like me logo Genes that share ontologies with NELFB: view

No data available for SIGNOR curated interactions for NELFB Gene

Drugs & Compounds for NELFB Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for NELFB Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for NELFB Gene

(1) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(2163) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for NELFB Gene

Negative elongation factor complex member B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NELFB Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b · 5c · 5d ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14
SP1: - - - -
SP2: - -
SP3: - -
SP4:
SP5: -
SP6: -

Relevant External Links for NELFB Gene

GeneLoc Exon Structure for
NELFB
ECgene alternative splicing isoforms for
NELFB

Expression for NELFB Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NELFB Gene

mRNA expression in normal human tissues for NELFB Gene
mRNA expression by BioGPS for NELFB GenemRNA expression by GTEx for NELFB Gene

Protein differential expression in normal tissues from HIPED for NELFB Gene

This gene is overexpressed in Bone (19.1) and Breast (15.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NELFB Gene



Protein tissue co-expression partners for NELFB Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NELFB Gene:

NELFB

SOURCE GeneReport for Unigene cluster for NELFB Gene:

Hs.521809

mRNA Expression by UniProt/SwissProt for NELFB Gene:

Q8WX92-NELFB_HUMAN
Tissue specificity: Widely expressed. Expressed in heart, brain, lung, placenta, liver, skeletal muscle, kidney and pancreas.

Evidence on tissue expression from TISSUES for NELFB Gene

  • Nervous system(4.8)
  • Liver(4.2)
  • Lung(4.2)
genes like me logo Genes that share expression patterns with NELFB: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for NELFB Gene

Orthologs for NELFB Gene

This gene was present in the common ancestor of animals.

Orthologs for NELFB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia NELFB 35
  • 100 (a)
 OneToOne
COBRA1 34
  • 98.3 (n)
cow
(Bos Taurus)
 Mammalia COBRA1 35
  • 96 (a)
 OneToOne
NELFB 34
  • 89.37 (n)
oppossum
(Monodelphis domestica)
 Mammalia NELFB 35
  • 91 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia NELFB 34 35
  • 89.48 (n)
rat
(Rattus norvegicus)
 Mammalia Nelfb 34
  • 86.15 (n)
mouse
(Mus musculus)
 Mammalia Nelfb 34 16 35
  • 85.63 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia NELFB 35
  • 84 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves COBRA1 35 34
  • 78.26 (n)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia NELFB 35
  • 86 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia nelfb 34
  • 76.91 (n)
African clawed frog
(Xenopus laevis)
 Amphibia Xl.7402 34
zebrafish
(Danio rerio)
 Actinopterygii nelfb 34 35
  • 71.9 (n)
zgc55628 34
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP012109 34
  • 62.76 (n)
fruit fly
(Drosophila melanogaster)
 Insecta NELF-B 34 35
  • 59 (n)
sea squirt
(Ciona intestinalis)
 Ascidiacea Cin.3713 34
Species where no ortholog for NELFB was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for NELFB Gene

ENSEMBL:
Gene Tree for NELFB (if available)
TreeFam:
Gene Tree for NELFB (if available)

Paralogs for NELFB Gene

No data available for Paralogs for NELFB Gene

Variants for NELFB Gene

Sequence variations from dbSNP and Humsavar for NELFB Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs1000113326 -- 137,268,223(+) GGCCT(C/T)GTCTG intron-variant
rs1000226346 -- 137,263,908(+) GGACC(C/T)TCCAG intron-variant
rs1000287829 -- 137,262,902(+) TGAGA(A/G)GAGGG intron-variant
rs1000305288 -- 137,266,890(+) CAGGG(G/T)GGGGT intron-variant
rs1000378331 -- 137,273,157(+) TTTGG(C/T)AGCCA utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for NELFB Gene

Variant ID Type Subtype PubMed ID
dgv13009n54 CNV loss 21841781
dgv13011n54 CNV loss 21841781
esv2422220 CNV deletion 17116639
esv2739418 CNV deletion 23290073
esv2739419 CNV deletion 23290073
nsv1161918 CNV duplication 26073780
nsv524322 CNV loss 19592680
nsv951207 CNV deletion 24416366

Variation tolerance for NELFB Gene

Residual Variation Intolerance Score: 7.39% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.50; 29.25% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NELFB Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NELFB

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NELFB Gene

Disorders for NELFB Gene

Relevant External Links for NELFB

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NELFB

No disorders were found for NELFB Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NELFB Gene

Publications for NELFB Gene

  1. Deregulation of cofactor of BRCA1 expression in breast cancer cells. (PMID: 17910036) Sun J. … Li R. (J. Cell. Biochem. 2008) 2 3 22 64
  2. Cofactor of BRCA1 modulates androgen-dependent transcription and alternative splicing. (PMID: 17659869) Sun J. … Li R. (J. Steroid Biochem. Mol. Biol. 2007) 2 3 22 64
  3. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S. … Poustka A. (Genome Res. 2001) 2 3 4 64
  4. Characterization of cDNA clones selected by the GeneMark analysis from size-fractionated cDNA libraries from human brain. (PMID: 10574461) Hirosawa M. … Ohara O. (DNA Res. 1999) 2 3 4 64
  5. Cofactor of BRCA1: a novel transcription factor regulator in upper gastrointestinal adenocarcinomas. (PMID: 16452188) McChesney P.A. … El-Rifai W. (Cancer Res. 2006) 3 22 64

Products for NELFB Gene

Sources for NELFB Gene

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