Ccdc47 coiled-coil domain containing 47 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ccdc47provided by RGD
Official Full Name: coiled-coil domain containing 47provided by RGD
Primary source: RGD:1308813
See related: EnsemblRapid:ENSRNOG00000009006 AllianceGenome:RGD:1308813
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: RGD1308813
Summary: Predicted to enable calcium ion binding activity; protein folding chaperone; and ribosome binding activity. Predicted to be involved in ERAD pathway; endoplasmic reticulum calcium ion homeostasis; and multi-pass transmembrane protein insertion into ER membrane. Predicted to act upstream of or within several processes, including ER overload response; calcium ion homeostasis; and endoplasmic reticulum organization. Predicted to be located in endoplasmic reticulum membrane and rough endoplasmic reticulum. Predicted to be part of multi-pass translocon complex and protein folding chaperone complex. Predicted to be active in endoplasmic reticulum. Orthologous to human CCDC47 (coiled-coil domain containing 47). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Adrenal (RPKM 288.5), Kidney (RPKM 244.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q32.1

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (91630101..91648626, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (91130303..91148829, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (94388425..94406949, complement)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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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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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables protein folding chaperone	ISO Inferred from Sequence Orthology more info
enables protein folding chaperone	ISS Inferred from Sequence or Structural Similarity more info
enables ribosome binding	ISO Inferred from Sequence Orthology more info
enables ribosome binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within ER overload response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ERAD pathway	ISO Inferred from Sequence Orthology more info
involved_in ERAD pathway	ISO Inferred from Sequence Orthology more info
involved_in ERAD pathway	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within calcium ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum calcium ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum calcium ion homeostasis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within endoplasmic reticulum organization	ISO Inferred from Sequence Orthology more info
involved_in multi-pass transmembrane protein insertion into ER membrane	ISO Inferred from Sequence Orthology more info
involved_in multi-pass transmembrane protein insertion into ER membrane	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within post-embryonic development	ISO Inferred from Sequence Orthology more info
involved_in protein folding	IEA Inferred from Electronic Annotation more info
involved_in protein insertion into ER membrane	ISO Inferred from Sequence Orthology more info
involved_in protein insertion into ER membrane	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISS Inferred from Sequence or Structural Similarity more info
part_of multi-pass translocon complex	ISO Inferred from Sequence Orthology more info
part_of multi-pass translocon complex	ISS Inferred from Sequence or Structural Similarity more info
part_of protein folding chaperone complex	ISO Inferred from Sequence Orthology more info
located_in rough endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in rough endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: PAT complex subunit CCDC47

Names: PAT complex component CCDC47; coiled-coil domain-containing protein 47

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_001013974.1 → NP_001013996.1 PAT complex subunit CCDC47 precursor

See identical proteins and their annotated locations for NP_001013996.1

Status: PROVISIONAL

Source sequence(s)

BC085824

UniProtKB/Swiss-Prot

Q5U2X6

UniProtKB/TrEMBL

A6HK13

Related

ENSRNOP00000012533.4, ENSRNOT00000012533.8

Conserved Domains (2) summary

PRK05901
Location:18 → 115

PRK05901; RNA polymerase sigma factor; Provisional

pfam07946
Location:135 → 467

DUF1682; Protein of unknown function (DUF1682)

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_086028.1 Reference GRCr8

Range

91630101..91648626 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039086169.2 → XP_038942097.1 PAT complex subunit CCDC47 isoform X1

Conserved Domains (1) summary

pfam07946
Location:18 → 288

DUF1682; Protein of unknown function (DUF1682)