PRDM1 PR/SET domain 1 [Bos taurus (cattle)] - Gene

Summary

Official Symbol: PRDM1provided by VGNC
Official Full Name: PR/SET domain 1provided by VGNC
Primary source: VGNC:VGNC:33288
See related: BGD:BT26353; Ensembl:ENSBTAG00000000816
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Bos taurus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae; Bovinae; Bos
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 9

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2023_09	current	ARS-UCD2.0 (GCF_002263795.3)	9	NC_037336.1 (43843910..43866380, complement)

Chromosome 9 - NC_037336.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_037336.1 Chromosome 9 Reference ARS-UCD2.0 Primary Assembly

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by RefSeq

Function	Evidence Code	Pubs
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info	PubMed
enables histone deacetylase binding	IEA Inferred from Electronic Annotation more info	PubMed

Process	Evidence Code	Pubs
involved_in cell fate commitment	IEA Inferred from Electronic Annotation more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info	PubMed

General protein information

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Preferred Names: PR domain zinc finger protein 1

NCBI Reference Sequences (RefSeq)

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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)

NM_001192936.1 → NP_001179865.1 PR domain zinc finger protein 1

See identical proteins and their annotated locations for NP_001179865.1

Status: PROVISIONAL

Source sequence(s)

NKLS02000009

UniProtKB/TrEMBL

E1BJ30

Related

ENSBTAP00000073571.1, ENSBTAT00000086780.2

Conserved Domains (5) summary

smart00317
Location:100 → 206

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

COG5048
Location:574 → 692

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:581 → 601

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:579 → 601

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:621 → 646

zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_002263795.3-RS_2023_09

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

Reference ARS-UCD2.0 Primary Assembly

Genomic

NC_037336.1 Reference ARS-UCD2.0 Primary Assembly

Range

43843910..43866380 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_059889791.1 → XP_059745774.1 PR domain zinc finger protein 1 isoform X2
XM_005210834.5 → XP_005210891.1 PR domain zinc finger protein 1 isoform X1

See identical proteins and their annotated locations for XP_005210891.1

Conserved Domains (5) summary

smart00317
Location:64 → 170

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

COG5048
Location:538 → 656

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:545 → 565

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:543 → 565

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:585 → 610

zf-H2C2_2; Zinc-finger double domain
XM_059889792.1 → XP_059745775.1 PR domain zinc finger protein 1 isoform X4
XM_010808462.4 → XP_010806764.1 PR domain zinc finger protein 1 isoform X3

See identical proteins and their annotated locations for XP_010806764.1

Conserved Domains (5) summary

smart00317
Location:13 → 80

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

COG5048
Location:448 → 566

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:455 → 475

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:453 → 475

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:495 → 520

zf-H2C2_2; Zinc-finger double domain
XM_005210836.5 → XP_005210893.1 PR domain zinc finger protein 1 isoform X5

See identical proteins and their annotated locations for XP_005210893.1

Related

ENSBTAP00000087213.1, ENSBTAT00000105342.1

Conserved Domains (5) summary

smart00317
Location:5 → 72

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

COG5048
Location:440 → 558

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:447 → 467

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:445 → 467

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:487 → 512

zf-H2C2_2; Zinc-finger double domain