Gypc glycophorin C [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Gypcprovided by MGI
Official Full Name: glycophorin Cprovided by MGI
Primary source: MGI:MGI:1098566
See related: Ensembl:ENSMUSG00000090523 AllianceGenome:MGI:1098566
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Cd236r; 0610037F22Rik
Summary: Located in cortical cytoskeleton and membrane. Is expressed in central nervous system; liver lobe; and pancreas mesenchyme. Human ortholog(s) of this gene implicated in malaria. Orthologous to human GYPC (glycophorin C (Gerbich blood group)). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Broad expression in liver E14.5 (RPKM 29.8), liver E14 (RPKM 27.7) and 17 other tissues See more
Orthologs: human all
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Genomic context

Location:: 18 B1; 18 18.05 cM

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	18	NC_000084.7 (32661373..32693087, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	18	NC_000084.6 (32528320..32560034, complement)

Chromosome 18 - NC_000084.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (1)

General gene information

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Gene Ontology Provided by MGI

Component	Evidence Code	Pubs
is_active_in cortical cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info
located_in cortical cytoskeleton	IDA Inferred from Direct Assay more info	PubMed
located_in cortical cytoskeleton	ISO Inferred from Sequence Orthology more info
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: glycophorin-C

Names: Gerbich antigen

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_001048207.1 → NP_001041672.1 glycophorin-C isoform 1

See identical proteins and their annotated locations for NP_001041672.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longer isoform (1).

Source sequence(s)

AK002769, AY234183

Consensus CDS

CCDS57118.1

UniProtKB/Swiss-Prot

Q6XFR5, Q78HU7

Related

ENSMUSP00000134317.2, ENSMUST00000174459.2

Conserved Domains (1) summary

smart00294
Location:47 → 65

4.1m; putative band 4.1 homologues' binding motif
NM_001347610.1 → NP_001334539.1 glycophorin-C isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter tha isoform 1.

Source sequence(s)

AC098881, AK002769, BB842332, BE951636

Consensus CDS

CCDS84368.1

UniProtKB/TrEMBL

F7D1I5, G3UXY6

Related

ENSMUSP00000133874.2, ENSMUST00000174000.2

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000084.7 Reference GRCm39 C57BL/6J

Range

32661373..32693087 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_027863.2: Suppressed sequence

Description

NM_027863.2: This RefSeq was permanently suppressed because the coding region was annotated in the wrong location, therefore, representing the wrong protein.