Ccin calicin [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ccinprovided by RGD
Full Name: calicinprovided by RGD
Primary source: RGD:1359369
See related: EnsemblRapid:ENSRNOG00000014831 AllianceGenome:RGD:1359369
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
Summary: Predicted to enable ubiquitin-like ligase-substrate adaptor activity. Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process and spermatogenesis. Predicted to be located in cytoskeletal calyx. Predicted to be part of Cul3-RING ubiquitin ligase complex. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in spermatogenic failure 91. Orthologous to human CCIN (calicin). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: 5q22

Exon count:: 1

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (63002427..63004314)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (58206676..58208563)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (59452348..59454235)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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 RGD

Function	Evidence Code	Pubs
enables ubiquitin-like ligase-substrate adaptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in spermatogenesis	ISO Inferred from Sequence Orthology more info
involved_in spermatogenesis	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of Cul3-RING ubiquitin ligase complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoskeletal calyx	ISO Inferred from Sequence Orthology more info
located_in cytoskeletal calyx	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: calicin

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_001005904.1 → NP_001005904.1 calicin

See identical proteins and their annotated locations for NP_001005904.1

Status: PROVISIONAL

Source sequence(s)

BC083832

UniProtKB/Swiss-Prot

Q5XI58

UniProtKB/TrEMBL

A6IJ62

Related

ENSRNOP00000106158.1, ENSRNOT00000124170.1

Conserved Domains (4) summary

PHA03098
Location:41 → 462

PHA03098; kelch-like protein; Provisional

sd00038
Location:317 → 362

Kelch; KELCH repeat [structural motif]

cd18307
Location:27 → 123

BTB_POZ_calicin; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in calicin

cl28903
Location:130 → 208

BACK; BACK (BTB and C-terminal Kelch) domain