Clec16a C-type lectin domain containing 16A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Clec16aprovided by RGD
Official Full Name: C-type lectin domain containing 16Aprovided by RGD
Primary source: RGD:1305773
See related: EnsemblRapid:ENSRNOG00000057378 AllianceGenome:RGD:1305773
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: RGD1305773
Summary: Predicted to be involved in several processes, including mitophagy; negative regulation of autophagosome maturation; and positive regulation of TORC1 signaling. Predicted to act upstream of or within negative regulation of mitophagy; negative regulation of proteasomal ubiquitin-dependent protein catabolic process; and positive regulation of autophagosome maturation. Predicted to be located in Golgi apparatus; cytosol; and endolysosome membrane. Human ortholog(s) of this gene implicated in Addison's disease; multiple sclerosis; rheumatoid arthritis; and type 1 diabetes mellitus. Orthologous to human CLEC16A (C-type lectin domain containing 16A). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 103.9), Heart (RPKM 93.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q11

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (5434725..5631246, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (4927799..5123749, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (5002196..5196914, complement)

Chromosome 10 - NC_086028.1 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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Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to starvation	ISO Inferred from Sequence Orthology more info
involved_in endosomal transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in mitophagy	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of autophagosome maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of mitophagy	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of proteasomal ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of TORC1 signaling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of autophagosome maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of proteasome-mediated ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in protein destabilization	ISO Inferred from Sequence Orthology more info
involved_in regulation of autophagosome maturation	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of proteasomal ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in vacuolar transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in Golgi apparatus	IBA Inferred from Biological aspect of Ancestor more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in endolysosome membrane	ISO Inferred from Sequence Orthology more info
colocalizes_with late endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in vesicle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: protein CLEC16A

Names: C-type lectin domain family 16, member A

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_001398551.1 → NP_001385480.1 protein CLEC16A

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

Related

ENSRNOP00000083500.2, ENSRNOT00000105739.2

Conserved Domains (1) summary

pfam09758
Location:51 → 198

FPL; Uncharacterized conserved protein