Icam5 intercellular adhesion molecule 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Icam5provided by RGD
Official Full Name: intercellular adhesion molecule 5provided by RGD
Primary source: RGD:1305039
See related: Ensembl:ENSRNOG00000020694 AllianceGenome:RGD:1305039
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
Summary: Predicted to enable integrin binding activity. Predicted to be involved in cell adhesion. Predicted to act upstream of or within phagocytosis. Predicted to be located in plasma membrane. Predicted to be integral component of plasma membrane. Orthologous to human ICAM5 (intercellular adhesion molecule 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 197.9) and Liver (RPKM 10.7) See more
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Genomic context

Location:: 8q13

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (27843563..27851767)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (19567390..19575588)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (22050222..22057209)

Chromosome 8 - NC_086026.1 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?

The Asn54-linked glycan is necessary for normal trafficking and function of ICAM-5, but is unassociated with ER-associated degradation of it.
Title: Asn54-linked glycan is critical for functional folding of intercellular adhesion molecule-5.
Elucidation of the roles of the N-glycans expressed in neural cells, including those present on ICAM-5.
Title: Structural study of the N-glycans of intercellular adhesion molecule-5 (telencephalin).
ICAM-5 is involved in immune privilege of the brain and acts as an anti-inflammatory agent.
Title: Shedded neuronal ICAM-5 suppresses T-cell activation.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables integrin binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell adhesion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within phagocytosis	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: intercellular adhesion molecule 5

Names: intercellular adhesion molecule 5, telencephalin

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_001172079.1 → NP_001165550.1 intercellular adhesion molecule 5

See identical proteins and their annotated locations for NP_001165550.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

A6JNN4, D4A435

Related

ENSRNOP00000028096.4, ENSRNOT00000028096.7

Conserved Domains (7) summary

cd00096
Location:687 → 738

Ig; Immunoglobulin domain

cd05755
Location:120 → 219

Ig2_ICAM-1_like; Second immunoglobulin (Ig)-like domain of intercellular cell adhesion molecule-1 (ICAM-1, CD54) and similar proteins

smart00408
Location:759 → 819

IGc2; Immunoglobulin C-2 Type

smart00410
Location:756 → 829

IG_like; Immunoglobulin like

pfam03921
Location:32 → 103

ICAM_N; Intercellular adhesion molecule (ICAM), N-terminal domain

pfam07679
Location:572 → 659

I-set; Immunoglobulin I-set domain

cl11960
Location:323 → 399

Ig; Immunoglobulin domain