Apoc1 apolipoprotein C1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Apoc1provided by RGD
Full Name: apolipoprotein C1provided by RGD
Primary source: RGD:2134
See related: AllianceGenome:RGD:2134
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: ALPCI; LRRG04; Apo-CIB; ApoC-IB
Summary: Predicted to enable fatty acid binding activity and phospholipase inhibitor activity. Involved in regulation of lipid transport. Part of high-density lipoprotein particle and very-low-density lipoprotein particle. Human ortholog(s) of this gene implicated in Alzheimer's disease and obesity. Orthologous to human APOC1 (apolipoprotein C1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 23072.7) See more
Orthologs: human mouse all
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Genomic context

Location:: 1q21

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (88475018..88479052, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (79347057..79350340, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	Unplaced Scaffold	NW_007906487.1 (10689..11406)

Chromosome 1 - NC_086019.1 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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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables fatty acid binding	IBA Inferred from Biological aspect of Ancestor more info
enables fatty acid binding	ISO Inferred from Sequence Orthology more info
enables lipase inhibitor activity	ISO Inferred from Sequence Orthology more info
enables phospholipase inhibitor activity	IBA Inferred from Biological aspect of Ancestor more info
enables phospholipase inhibitor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cholesterol efflux	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cholesterol metabolic process	ISO Inferred from Sequence Orthology more info
involved_in chylomicron remnant clearance	ISO Inferred from Sequence Orthology more info
involved_in lipoprotein metabolic process	IEA Inferred from Electronic Annotation more info
involved_in lipoprotein metabolic process	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of cholesterol transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of cholesterol transport	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of fatty acid biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lipid catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of lipid catabolic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lipid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lipoprotein lipase activity	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of phosphatidylcholine catabolic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of receptor-mediated endocytosis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of very-low-density lipoprotein particle clearance	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of very-low-density lipoprotein particle clearance	ISO Inferred from Sequence Orthology more info
involved_in phospholipid efflux	ISO Inferred from Sequence Orthology more info
involved_in plasma lipoprotein particle remodeling	ISO Inferred from Sequence Orthology more info
involved_in regulation of lipid transport	IDA Inferred from Direct Assay more info	PubMed
involved_in triglyceride metabolic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within triglyceride metabolic process	ISO Inferred from Sequence Orthology more info
involved_in very-low-density lipoprotein particle clearance	IBA Inferred from Biological aspect of Ancestor more info
involved_in very-low-density lipoprotein particle clearance	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
part_of high-density lipoprotein particle	IBA Inferred from Biological aspect of Ancestor more info
part_of high-density lipoprotein particle	IDA Inferred from Direct Assay more info	PubMed
part_of high-density lipoprotein particle	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
part_of very-low-density lipoprotein particle	IBA Inferred from Biological aspect of Ancestor more info
part_of very-low-density lipoprotein particle	IDA Inferred from Direct Assay more info	PubMed
part_of very-low-density lipoprotein particle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: apolipoprotein C-I

Names: apo-CI; apoC-I; liver regeneration-related protein LRRG04

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_001109996.1 → NP_001103466.1 apolipoprotein C-I precursor

See identical proteins and their annotated locations for NP_001103466.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) contains an additional 5' non-coding exon, therefore, has a different 5' UTR compared to transcript variant 1. Transcript variants 1 and 2 encode the same protein.

Source sequence(s)

AY327505, BC098670

UniProtKB/Swiss-Prot

P19939, Q53ZD8

UniProtKB/TrEMBL

A6J8R3

Conserved Domains (1) summary

pfam04691
Location:27 → 86

ApoC-I; Apolipoprotein C-I (ApoC-1)
NM_012824.2 → NP_036956.1 apolipoprotein C-I precursor

See identical proteins and their annotated locations for NP_036956.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript. Transcript variants 1 and 2 encode the same protein.

Source sequence(s)

BC098670, X15512

UniProtKB/Swiss-Prot

P19939, Q53ZD8

UniProtKB/TrEMBL

A6J8R3

Conserved Domains (1) summary

pfam04691
Location:27 → 86

ApoC-I; Apolipoprotein C-I (ApoC-1)

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_086019.1 Reference GRCr8

Range

88475018..88479052 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063281631.1 → XP_063137701.1 apolipoprotein C-I isoform X1

UniProtKB/Swiss-Prot

P19939, Q53ZD8

UniProtKB/TrEMBL

A6J8R3
XM_063281630.1 → XP_063137700.1 apolipoprotein C-I isoform X1

UniProtKB/Swiss-Prot

P19939, Q53ZD8

UniProtKB/TrEMBL

A6J8R3
XM_063281632.1 → XP_063137702.1 apolipoprotein C-I isoform X1

UniProtKB/Swiss-Prot

P19939, Q53ZD8

UniProtKB/TrEMBL

A6J8R3