Prdm11 PR/SET domain 11 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Prdm11provided by RGD
Official Full Name: PR/SET domain 11provided by RGD
Primary source: RGD:1597330
See related: Ensembl:ENSRNOG00000008674 AllianceGenome:RGD:1597330
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1305673
Summary: Predicted to enable chromatin binding activity. Predicted to be involved in several processes, including negative regulation of cell growth; positive regulation of fibroblast apoptotic process; and regulation of transcription, DNA-templated. Predicted to be located in cytosol. Predicted to be active in nucleus. Orthologous to human PRDM11 (PR/SET domain 11). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 60.5), Lung (RPKM 30.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q31

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (99381093..99460805, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (78925654..79005495, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (81862737..81942203, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

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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Markers

D3Got37 (e-PCR)
- UniSTS:114474

D3Rat91 (e-PCR), detects polymorphism
- UniSTS:227688

BE106201 (e-PCR)
- UniSTS:246170

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of fibroblast apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell cycle	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: PR domain-containing protein 11

Names: PR domain 11; PR domain containing 11

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_001271530.2 → NP_001258459.1 PR domain-containing protein 11

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

D4A985

Related

ENSRNOP00000061592.2, ENSRNOT00000066526.4

Conserved Domains (1) summary

smart00317
Location:129 → 230

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

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086021.1 Reference GRCr8

Range

99381093..99460805 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039105882.2 → XP_038961810.1 PR domain-containing protein 11 isoform X2

Conserved Domains (1) summary

cd19195
Location:249 → 375

PR-SET_PRDM11; PR-SET domain found in PR domain zinc finger protein 11 (PRDM11) and similar proteins
XM_017592049.3 → XP_017447538.1 PR domain-containing protein 11 isoform X1

UniProtKB/TrEMBL

D4A985

Conserved Domains (1) summary

smart00317
Location:129 → 230

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
XM_017592048.3 → XP_017447537.1 PR domain-containing protein 11 isoform X1

UniProtKB/TrEMBL

D4A985

Conserved Domains (1) summary

smart00317
Location:129 → 230

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
XM_063284582.1 → XP_063140652.1 PR domain-containing protein 11 isoform X3

UniProtKB/TrEMBL

D3ZMU9
XM_063284583.1 → XP_063140653.1 PR domain-containing protein 11 isoform X4

UniProtKB/TrEMBL

D3ZMU9