Cnot1 CCR4-NOT transcription complex, subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cnot1provided by RGD
Official Full Name: CCR4-NOT transcription complex, subunit 1provided by RGD
Primary source: RGD:1308009
See related: EnsemblRapid:ENSRNOG00000012271 AllianceGenome:RGD:1308009
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1308009
Summary: Predicted to enable armadillo repeat domain binding activity; molecular adaptor activity; and nuclear receptor binding activity. Predicted to contribute to poly(A)-specific ribonuclease activity. Predicted to be involved in several processes, including negative regulation of intracellular signal transduction; positive regulation of cytoplasmic mRNA processing body assembly; and regulation of gene expression. Predicted to be located in cytosol. Predicted to be part of CCR4-NOT core complex. Predicted to be active in P-body. Human ortholog(s) of this gene implicated in Vissers-Bodmer syndrome and holoprosencephaly 12. Orthologous to human CNOT1 (CCR4-NOT transcription complex subunit 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Testes (RPKM 474.0), Thymus (RPKM 407.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19p13

Exon count:: 51

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (9261290..9352636)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (9255190..9346574)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (9668186..9761605)

Chromosome 19 - NC_086037.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

Submit: New GeneRIF Correction

General gene information

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Markers

BF387398 (e-PCR)
- UniSTS:244333

MARC_16903-16904:1022861972:1 (e-PCR)
- UniSTS:268150

Cnot1 (e-PCR), detects polymorphism
- UniSTS:547198

AU047625 (e-PCR)
- UniSTS:110323

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables armadillo repeat domain binding	ISO Inferred from Sequence Orthology more info
enables molecular adaptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables molecular adaptor activity	ISO Inferred from Sequence Orthology more info
enables nuclear estrogen receptor binding	ISO Inferred from Sequence Orthology more info
enables nuclear retinoic acid receptor binding	ISO Inferred from Sequence Orthology more info
contributes_to poly(A)-specific ribonuclease activity	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in miRNA-mediated post-transcriptional gene silencing	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of intracellular estrogen receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of retinoic acid receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cytoplasmic mRNA processing body assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mRNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of nuclear-transcribed mRNA poly(A) tail shortening	ISO Inferred from Sequence Orthology more info
involved_in regulation of stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in trophectodermal cell differentiation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of CCR4-NOT complex	ISO Inferred from Sequence Orthology more info
part_of CCR4-NOT core complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in P-body	IBA Inferred from Biological aspect of Ancestor more info
located_in P-body	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: CCR4-NOT transcription complex subunit 1

Names: adrenal gland protein AD-005

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_001134840.1 → NP_001128312.1 CCR4-NOT transcription complex subunit 1

See identical proteins and their annotated locations for NP_001128312.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000019

UniProtKB/TrEMBL

A0A8I6AG10, A6JXZ2

Related

ENSRNOP00000016563.7, ENSRNOT00000016563.7

Conserved Domains (5) summary

pfam04054
Location:1998 → 2353

Not1; CCR4-Not complex component, Not1

pfam12842
Location:1389 → 1534

DUF3819; Domain of unknown function (DUF3819)

pfam16415
Location:1088 → 1312

CNOT1_CAF1_bind; CCR4-NOT transcription complex subunit 1 CAF1-binding domain

pfam16417
Location:815 → 1004

CNOT1_TTP_bind; CCR4-NOT transcription complex subunit 1 TTP binding domain

pfam16418
Location:500 → 656

CNOT1_HEAT; CCR4-NOT transcription complex subunit 1 HEAT repeat

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_086037.1 Reference GRCr8

Range

9261290..9352636

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039097544.2 → XP_038953472.1 CCR4-NOT transcription complex subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6AG10, G3V7M0

Conserved Domains (2) summary

COG5103
Location:840 → 2376

CDC39; Cell division control protein, negative regulator of transcription [Cell division and chromosome partitioning / Transcription]

pfam16418
Location:500 → 656

CNOT1_HEAT; CCR4-NOT transcription complex subunit 1 HEAT repeat
XM_063277847.1 → XP_063133917.1 CCR4-NOT transcription complex subunit 1 isoform X3

UniProtKB/TrEMBL

A0A8I6AG10
XM_039097549.2 → XP_038953477.1 CCR4-NOT transcription complex subunit 1 isoform X6

UniProtKB/TrEMBL

A0A8I6AG10

Related

ENSRNOP00000090364.1, ENSRNOT00000118032.2

Conserved Domains (2) summary

COG5103
Location:835 → 2364

CDC39; Cell division control protein, negative regulator of transcription [Cell division and chromosome partitioning / Transcription]

pfam16418
Location:500 → 656

CNOT1_HEAT; CCR4-NOT transcription complex subunit 1 HEAT repeat
XM_063277846.1 → XP_063133916.1 CCR4-NOT transcription complex subunit 1 isoform X2

UniProtKB/TrEMBL

A0A8I6AG10
XM_039097548.2 → XP_038953476.1 CCR4-NOT transcription complex subunit 1 isoform X5

UniProtKB/TrEMBL

A0A8I6AG10

Conserved Domains (2) summary

COG5103
Location:839 → 2368

CDC39; Cell division control protein, negative regulator of transcription [Cell division and chromosome partitioning / Transcription]

pfam16418
Location:500 → 656

CNOT1_HEAT; CCR4-NOT transcription complex subunit 1 HEAT repeat
XM_039097547.2 → XP_038953475.1 CCR4-NOT transcription complex subunit 1 isoform X4

UniProtKB/TrEMBL

A0A8I6AG10

Conserved Domains (2) summary

COG5103
Location:834 → 2370

CDC39; Cell division control protein, negative regulator of transcription [Cell division and chromosome partitioning / Transcription]

pfam16418
Location:500 → 656

CNOT1_HEAT; CCR4-NOT transcription complex subunit 1 HEAT repeat
XM_063277848.1 → XP_063133918.1 CCR4-NOT transcription complex subunit 1 isoform X7

UniProtKB/TrEMBL

A0A8I6AG10
XM_063277843.1 → XP_063133913.1 CCR4-NOT transcription complex subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6AG10, G3V7M0
XM_063277844.1 → XP_063133914.1 CCR4-NOT transcription complex subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6AG10, G3V7M0
XM_063277845.1 → XP_063133915.1 CCR4-NOT transcription complex subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6AG10, G3V7M0

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001025273.1: Suppressed sequence

Description

NM_001025273.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.