Ccl9 C-C motif chemokine ligand 9 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ccl9provided by RGD
Official Full Name: C-C motif chemokine ligand 9provided by RGD
Primary source: RGD:1310563
See related: EnsemblRapid:ENSRNOG00000028548 AllianceGenome:RGD:1310563
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 CCR chemokine receptor binding activity; chemoattractant activity; and chemokine activity. Involved in positive regulation of osteoclast differentiation. Predicted to be active in extracellular space. Orthologous to human CCL15 (C-C motif chemokine ligand 15) and CCL23 (C-C motif chemokine ligand 23). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Restricted expression toward (RPKM 1888.9) See more
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Genomic context

Location:: 10q26

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (68863994..68868928, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (68366486..68371408, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (70783426..70788372, 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 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?

There is a marked > 15-fold daily rhythm in expression of Ccl9 in the rat pineal gland, with day values elevated. This probably reflects circadian neural stimulation by the suprachiasmatic nucleus.
Title: Night/day changes in pineal expression of >600 genes: central role of adrenergic/cAMP signaling.
like the mouse, the rat also uses CCL9 to promote the complex process of osteoclast formation
Title: Molecular cloning and characterization of rat CCL9 (MIP-1gamma), the ortholog of mouse CCL9.
examination of all chemokine and receptor mRNAs from bone gene expression in vivo during rapid osteoclast differentiation induced by CSF-1 revealed CCL9 was strongly induced and peaked on day 2, as did its receptor, CCR1, and regulatory receptors
Title: Chemokine and chemokine receptor expression during colony stimulating factor-1-induced osteoclast differentiation in the toothless osteopetrotic rat: a key role for CCL9 (MIP-1gamma) in osteoclastogenesis in vivo and in vitro.

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables CCR chemokine receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables chemoattractant activity	ISO Inferred from Sequence Orthology more info
enables chemokine activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide	IBA Inferred from Biological aspect of Ancestor more info
involved_in chemokine-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in eosinophil chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
involved_in inflammatory response	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive chemotaxis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of osteoclast differentiation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: C-C motif chemokine 9

Names: chemokine (C-C motif) ligand 9; chemokine CCL9

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_001012357.1 → NP_001012357.1 C-C motif chemokine 9 precursor

See identical proteins and their annotated locations for NP_001012357.1

Status: PROVISIONAL

Source sequence(s)

BC089865

UniProtKB/TrEMBL

A1EC83, A6HHI4, Q5FVN3

Related

ENSRNOP00000032066.4, ENSRNOT00000029184.7

Conserved Domains (1) summary

smart00199
Location:49 → 106

SCY; Intercrine alpha family (small cytokine C-X-C) (chemokine CXC)

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_086028.1 Reference GRCr8

Range

68863994..68868928 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008768068.3 → XP_008766290.1 C-C motif chemokine 9 isoform X1

Conserved Domains (1) summary

smart00199
Location:30 → 87

SCY; Intercrine alpha family (small cytokine C-X-C) (chemokine CXC)