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Aliases for SETD1B Gene

Aliases for SETD1B Gene

  • SET Domain Containing 1B 2 3
  • Set1B 3 4 6
  • SET Domain-Containing Protein 1B 3 4
  • Lysine N-Methyltransferase 2G 3 4
  • EC 2.1.1.43 4 64
  • KIAA1076 4 6
  • HSET1B 3 4
  • KMT2G 3 4
  • Histone-Lysine N-Methyltransferase SETD1B 3
  • EC 2.1.1 64

External Ids for SETD1B Gene

Summaries for SETD1B Gene

Entrez Gene Summary for SETD1B Gene

  • SET1B is a component of a histone methyltransferase complex that produces trimethylated histone H3 at Lys4 (Lee et al., 2007 [PubMed 17355966]).[supplied by OMIM, Mar 2008]

GeneCards Summary for SETD1B Gene

SETD1B (SET Domain Containing 1B) is a Protein Coding gene. Among its related pathways are Lysine degradation. GO annotations related to this gene include RNA binding and histone methyltransferase activity (H3-K4 specific). An important paralog of this gene is KMT2C.

UniProtKB/Swiss-Prot for SETD1B Gene

  • Histone methyltransferase that specifically methylates Lys-4 of histone H3, when part of the SET1 histone methyltransferase (HMT) complex, but not if the neighboring Lys-9 residue is already methylated. H3 Lys-4 methylation represents a specific tag for epigenetic transcriptional activation. The non-overalpping localization with SETD1A suggests that SETD1A and SETD1B make non-redundant contributions to the epigenetic control of chromatin structure and gene expression. Specifically tri-methylates Lys-4 of histone H3 in vitro

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SETD1B Gene

Genomics for SETD1B Gene

Genomic Location for SETD1B Gene

Start:
121,803,683 bp from pter
End:
121,832,656 bp from pter
Size:
28,974 bases
Orientation:
Plus strand

Genomic View for SETD1B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SETD1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SETD1B Gene

Regulatory Elements for SETD1B Gene

Proteins for SETD1B Gene

  • Protein details for SETD1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UPS6-SET1B_HUMAN
    Recommended name:
    Histone-lysine N-methyltransferase SETD1B
    Protein Accession:
    Q9UPS6
    Secondary Accessions:
    • F6MFW1

    Protein attributes for SETD1B Gene

    Size:
    1966 amino acids
    Molecular mass:
    212803 Da
    Quaternary structure:
    • Component of the SET1 complex, at least composed of the catalytic subunit (SETD1A or SETD1B), WDR5, WDR82, RBBP5, ASH2L/ASH2, CXXC1/CFP1, HCFC1 and DPY30. Interacts with HCFC1 and ASH2L/ASH2. Interacts (via the RRM domain) with WDR82. Interacts (via the RRM domain) with hyperphosphorylated C-terminal domain (CTD) of RNA polymerase II large subunit (POLR2A) only in the presence of WDR82. Binds specifically to CTD heptad repeats phosphorylated on Ser-5 of each heptad. Interacts with RBM15.

    Three dimensional structures from OCA and Proteopedia for SETD1B Gene

    Alternative splice isoforms for SETD1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SETD1B Gene

Proteomics data for SETD1B Gene at MOPED

Post-translational modifications for SETD1B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SETD1B Gene

Domains for SETD1B Gene

Gene Families for SETD1B Gene

HGNC:
  • RBM :RNA binding motif (RRM) containing
  • KMT :Chromatin-modifying enzymes / K-methyltransferases

Protein Domains for SETD1B Gene

UniProtKB/Swiss-Prot:

SET1B_HUMAN
Domain:
  • Contains 1 post-SET domain.:
    • Q9UPS6
  • Contains 1 RRM (RNA recognition motif) domain.:
    • Q9UPS6
  • Contains 1 SET domain.:
    • Q9UPS6
Family:
  • Belongs to the class V-like SAM-binding methyltransferase superfamily.:
    • Q9UPS6
genes like me logo Genes that share domains with SETD1B: view

Function for SETD1B Gene

Molecular function for SETD1B Gene

UniProtKB/Swiss-Prot CatalyticActivity: S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].
UniProtKB/Swiss-Prot Function: Histone methyltransferase that specifically methylates Lys-4 of histone H3, when part of the SET1 histone methyltransferase (HMT) complex, but not if the neighboring Lys-9 residue is already methylated. H3 Lys-4 methylation represents a specific tag for epigenetic transcriptional activation. The non-overalpping localization with SETD1A suggests that SETD1A and SETD1B make non-redundant contributions to the epigenetic control of chromatin structure and gene expression. Specifically tri-methylates Lys-4 of histone H3 in vitro

Enzyme Numbers (IUBMB) for SETD1B Gene

Gene Ontology (GO) - Molecular Function for SETD1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 17998332
GO:0042800 contributes_to histone methyltransferase activity (H3-K4 specific) IDA 17355966
genes like me logo Genes that share ontologies with SETD1B: view

Phenotypes for SETD1B Gene

genes like me logo Genes that share phenotypes with SETD1B: view

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for SETD1B Gene

Localization for SETD1B Gene

Subcellular locations from UniProtKB/Swiss-Prot for SETD1B Gene

Nucleus speckle. Chromosome. Note=Localizes to a largely non-overlapping set of euchromatic nuclear speckles with SETD1A, suggesting that SETD1A and SET1B each bind to a unique set of target genes.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SETD1B Gene COMPARTMENTS Subcellular localization image for SETD1B gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for SETD1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0005654 nucleoplasm TAS --
GO:0005694 chromosome IEA --
GO:0005737 cytoplasm IDA --
GO:0016607 nuclear speck IEA --
genes like me logo Genes that share ontologies with SETD1B: view

Pathways for SETD1B Gene

SuperPathways for SETD1B Gene

Superpath Contained pathways
1 Lysine degradation
genes like me logo Genes that share pathways with SETD1B: view

Pathways by source for SETD1B Gene

1 KEGG pathway for SETD1B Gene

Gene Ontology (GO) - Biological Process for SETD1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006325 chromatin organization TAS --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0051568 histone H3-K4 methylation IDA 17355966
genes like me logo Genes that share ontologies with SETD1B: view

Compounds for SETD1B Gene

(2) HMDB Compounds for SETD1B Gene

Compound Synonyms Cas Number PubMed IDs
S-Adenosylhomocysteine
  • (S)-5'-(S)-(3-Amino-3-carboxypropyl)-5'-thioadenosine
979-92-0
S-Adenosylmethionine
  • (3S)-5'-[(3-amino-3-carboxypropyl)methylsulfonio]-5'-deoxyadenosine
29908-03-0
genes like me logo Genes that share compounds with SETD1B: view

Transcripts for SETD1B Gene

mRNA/cDNA for SETD1B Gene

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

Unigene Clusters for SETD1B Gene

SET domain containing 1B:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SETD1B Gene

No ASD Table

Relevant External Links for SETD1B Gene

GeneLoc Exon Structure for
SETD1B
ECgene alternative splicing isoforms for
SETD1B

Expression for SETD1B Gene

mRNA expression in normal human tissues for SETD1B Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SETD1B Gene

SOURCE GeneReport for Unigene cluster for SETD1B Gene Hs.507122

genes like me logo Genes that share expressions with SETD1B: view

Orthologs for SETD1B Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SETD1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SETD1B 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SETD1B 36
  • 86.56 (n)
  • 88.53 (a)
SETD1B 37
  • 85 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SETD1B 37
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Setd1b 16
Setd1b 37
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SETD1B 37
  • 64 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SETD1B 37
  • 64 (a)
OneToOne
chicken
(Gallus gallus)
Aves SETD1B 37
  • 60 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SETD1B 37
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6802 36
zebrafish
(Danio rerio)
Actinopterygii setd1ba 37
  • 51 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Set1 37
  • 25 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea set-2 37
  • 21 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SET1 37
  • 21 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4378 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7781 37
  • 42 (a)
OneToMany
Species with no ortholog for SETD1B:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • rat (Rattus norvegicus)
  • 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)

Evolution for SETD1B Gene

ENSEMBL:
Gene Tree for SETD1B (if available)
TreeFam:
Gene Tree for SETD1B (if available)

Paralogs for SETD1B Gene

Paralogs for SETD1B Gene

genes like me logo Genes that share paralogs with SETD1B: view

Variants for SETD1B Gene

Sequence variations from dbSNP and Humsavar for SETD1B Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
rs895952 -- 121,810,676(+) CCCCT(C/G)CCAGA reference, synonymous-codon
rs895953 -- 121,811,142(+) GAGCT(G/T)CTTTG intron-variant
rs895954 -- 121,811,185(+) GCTGT(A/G)GGGAT intron-variant
rs895957 -- 121,813,750(+) TTCCC(A/G)TATTC intron-variant
rs921287 -- 121,807,183(+) GTGGC(A/G)GTTAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SETD1B Gene

Variant ID Type Subtype PubMed ID
nsv899566 CNV Loss 21882294
nsv899567 CNV Gain 21882294
nsv911 CNV Loss 18451855
nsv899568 CNV Gain 21882294
nsv520973 CNV Loss 19592680

Relevant External Links for SETD1B Gene

HapMap Linkage Disequilibrium report
SETD1B

Disorders for SETD1B Gene

No disorders were found for SETD1B Gene.

No data available for UniProtKB/Swiss-Prot for SETD1B Gene

Publications for SETD1B Gene

  1. Identification and characterization of the human Set1B histone H3- Lys4 methyltransferase complex. (PMID: 17355966) Lee J.-H. … Skalnik D.G. (J. Biol. Chem. 2007) 2 3 4
  2. Prediction of the coding sequences of unidentified human genes. XIV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10470851) Kikuno R. … Ohara O. (DNA Res. 1999) 2 3 4
  3. Wdr82 is a C-terminal domain-binding protein that recruits the Setd1A Histone H3-Lys4 methyltransferase complex to transcription start sites of transcribed human genes. (PMID: 17998332) Lee J.H. … Skalnik D.G. (Mol. Cell. Biol. 2008) 3 4
  4. Molecular regulation of H3K4 trimethylation by Wdr82, a component of human Set1/COMPASS. (PMID: 18838538) Wu M. … Shilatifard A. (Mol. Cell. Biol. 2008) 3 4
  5. Rbm15-Mkl1 Interacts with the Setd1b Histone H3-Lys4 Methyltransferase via a SPOC Domain That Is Required for Cytokine- Independent Proliferation. (PMID: 22927943) Lee J.H. … Skalnik D.G. (PLoS ONE 2012) 3 4

Products for SETD1B Gene

Sources for SETD1B Gene

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