U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Setd1a SET domain containing 1A [ Mus musculus (house mouse) ]

Gene ID: 233904, updated on 8-Dec-2022

Summary

Official Symbol
Setd1aprovided by MGI
Official Full Name
SET domain containing 1Aprovided by MGI
Primary source
MGI:MGI:2446244
See related
Ensembl:ENSMUSG00000042308 AllianceGenome:MGI:2446244
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
KMT2F; mNSC1; Nsccn1; mKIAA0339
Summary
Predicted to enable beta-catenin binding activity and histone methyltransferase activity (H3-K4 specific). Involved in several processes, including histone H3-K4 methylation; regulation of chromatin organization; and regulation of erythrocyte differentiation. Acts upstream of or within positive regulation of neural precursor cell proliferation; positive regulation of stem cell proliferation; and stem cell population maintenance. Located in euchromatin and nucleus. Is expressed in several structures, including early conceptus; integumental system; liver; nervous system; and oocyte. Orthologous to human SETD1A (SET domain containing 1A, histone lysine methyltransferase). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 7.1), thymus adult (RPKM 7.0) and 28 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Setd1a in Genome Data Viewer
Location:
7; 7 F3
Exon count:
19
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (127376561..127399294)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (127777389..127800122)

Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 53374 Neighboring gene F-box and leucine-rich repeat protein 19 Neighboring gene ORAI calcium release-activated calcium modulator 3 Neighboring gene hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 7 Neighboring gene syntaxin 1B

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC55143

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
 
enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
enables beta-catenin binding ISO
Inferred from Sequence Orthology
more info
 
enables histone H3K4 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables histone H3K4 methyltransferase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables histone H3K4 methyltransferase activity ISO
Inferred from Sequence Orthology
more info
 
contributes_to histone H3K4 methyltransferase activity NAS
Non-traceable Author Statement
more info
PubMed 
contributes_to histone H3K4 methyltransferase activity TAS
Traceable Author Statement
more info
PubMed 
enables histone H3K4 monomethyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone lysine N-methyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in brain development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in brain development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to DNA damage stimulus IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in histone H3-K4 dimethylation ISO
Inferred from Sequence Orthology
more info
 
involved_in histone H3-K4 methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in histone H3-K4 methylation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in histone H3-K4 monomethylation ISO
Inferred from Sequence Orthology
more info
 
involved_in histone H3-K4 trimethylation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of neural precursor cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of stem cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of chromatin organization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of chromatin organization ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of erythrocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of hematopoietic stem cell differentiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within stem cell population maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of stem cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in transcription initiation-coupled chromatin remodeling NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
part_of Set1C/COMPASS complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of Set1C/COMPASS complex ISO
Inferred from Sequence Orthology
more info
 
part_of Set1C/COMPASS complex TAS
Traceable Author Statement
more info
PubMed 
located_in chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in euchromatin IDA
Inferred from Direct Assay
more info
PubMed 
part_of histone methyltransferase complex ISO
Inferred from Sequence Orthology
more info
PubMed 
part_of histone methyltransferase complex TAS
Traceable Author Statement
more info
PubMed 
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
PubMed 

General protein information

Preferred Names
histone-lysine N-methyltransferase SETD1A
Names
SET domain-containing protein 1A
non-selective cation channel 1
NP_821172.2

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_178029.3NP_821172.2  histone-lysine N-methyltransferase SETD1A

    Status: VALIDATED

    Source sequence(s)
    AC149222
    Consensus CDS
    CCDS40144.1
    UniProtKB/Swiss-Prot
    E9PYH6
    UniProtKB/TrEMBL
    E9PYH6
    Related
    ENSMUSP00000037600.7, ENSMUST00000047157.13
    Conserved Domains (5) summary
    smart00317
    Location:15771700
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:17001716
    PostSET; Cysteine-rich motif following a subset of SET domains
    cd12548
    Location:92186
    RRM_Set1A; RNA recognition motif in vertebrate histone-lysine N-methyltransferase Setd1A (Set1A)
    pfam11764
    Location:14341571
    N-SET; COMPASS (Complex proteins associated with Set1p) component N
    cl02774
    Location:835883
    Topoisomer_IB_N; Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA ...

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000073.7 Reference GRCm39 C57BL/6J

    Range
    127376561..127399294
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_010940.1: Suppressed sequence

    Description
    NM_010940.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.