cxcl12a chemokine (C-X-C motif) ligand 12a (stromal cell-derived factor 1) [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: cxcl12aprovided by ZNC
Official Full Name: chemokine (C-X-C motif) ligand 12a (stromal cell-derived factor 1)provided by ZNC
Primary source: ZFIN:ZDB-GENE-030318-1
See related: Ensembl:ENSDARG00000037116 AllianceGenome:ZFIN:ZDB-GENE-030318-1
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: SDF-1; sdf1a; cxcl12; sdf-1a; wu:fa55e10; wu:fc16h12; wu:fj84c02
Summary: Enables chemoattractant activity. Acts upstream of or within several processes, including nervous system development; regulation of cell migration; and regulation of chemotaxis. Is active in migrasome. Is expressed in several structures, including brain; mesoderm; myoseptum; reproductive system; and sensory system. Human ortholog(s) of this gene implicated in breast carcinoma; diabetic angiopathy; human immunodeficiency virus infectious disease; and type 1 diabetes mellitus. Orthologous to human CXCL12 (C-X-C motif chemokine ligand 12). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 13

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	13	NC_007124.7 (30804398..30818226)
105	previous assembly	GRCz10 (GCF_000002035.5)	13	NC_007124.6 (30673948..30687776)

Chromosome 13 - NC_007124.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Zebrafish tsc1 and cxcl12a increase susceptibility to mycobacterial infection.
Title: Zebrafish tsc1 and cxcl12a increase susceptibility to mycobacterial infection.
Role of Chemokine Cxcl12a in Mediating the Stimulatory Effects of Ethanol on Embryonic Development of Subpopulations of Hypocretin/Orexin Neurons and Their Projections.
Title: Role of Chemokine Cxcl12a in Mediating the Stimulatory Effects of Ethanol on Embryonic Development of Subpopulations of Hypocretin/Orexin Neurons and Their Projections.
The CXCR4-CXCL12 axis promotes T cell reconstitution via efficient hematopoietic immigration.
Title: The CXCR4-CXCL12 axis promotes T cell reconstitution via efficient hematopoietic immigration.
Tetraspanin Cd9b and Cxcl12a/Cxcr4b have a synergistic effect on the control of collective cell migration.
Title: Tetraspanin Cd9b and Cxcl12a/Cxcr4b have a synergistic effect on the control of collective cell migration.
Involvement of Cxcl12a/Cxcr4b Chemokine System in Mediating the Stimulatory Effect of Embryonic Ethanol Exposure on Neuronal Density in Zebrafish Hypothalamus.
Title: Involvement of Cxcl12a/Cxcr4b Chemokine System in Mediating the Stimulatory Effect of Embryonic Ethanol Exposure on Neuronal Density in Zebrafish Hypothalamus.
The CXCL12/CXCR4 Signaling Axis Retains Neutrophils at Inflammatory Sites in Zebrafish.
Title: The CXCL12/CXCR4 Signaling Axis Retains Neutrophils at Inflammatory Sites in Zebrafish.
formulate a mathematical model of a laser ablated primordium separated into two smaller cell collectives: a leading collective that responds to local CXCL12a levels and a trailing collective that migrates up a local FGF gradient.
Title: Modeling factors that regulate cell cooperativity in the zebrafish posterior lateral line primordium.
Cxcl12 and Myc facilitate glycolysis to promote fast migratory responses during development and repair during kidney injury and development
Title: CXCL12 and MYC control energy metabolism to support adaptive responses after kidney injury.
snail1b expression is initiated by chemokines first encountered by leading primordium cells and its expression plays a crucial role in initiating collective migration of the posterior lateral line primordium.
Title: Cxcl12a induces snail1b expression to initiate collective migration and sequential Fgf-dependent neuromast formation in the zebrafish posterior lateral line primordium.
Study demonstrates that forced expression of Sdf1a in the fish embryo during early development is an effective strategy to disrupt primordial germ cell migration and produce large populations of infertile fish.
Title: Inducible Sterilization of Zebrafish by Disruption of Primordial Germ Cell Migration.

Submit: New GeneRIF Correction See all GeneRIFs (35)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

fa55e10.s1 (e-PCR)
- UniSTS:202531

fj84c02.x1 (e-PCR)
- UniSTS:200072

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables chemoattractant activity	IBA Inferred from Biological aspect of Ancestor more info
enables chemoattractant activity	IDA Inferred from Direct Assay more info	PubMed
enables chemoattractant activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables chemokine activity	IEA Inferred from Electronic Annotation more info
enables cytokine activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within animal organ morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell migration involved in gastrulation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within cell migration involved in gastrulation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within chemotaxis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chemotaxis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within chemotaxis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within defense response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within fin regeneration	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within fin regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within forebrain development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within germ cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hematopoietic stem cell migration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within immune response	IEA Inferred from Electronic Annotation more info
involved_in induction of positive chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within induction of positive chemotaxis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within lymphangiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within lymphoid lineage cell migration into thymus	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within myofibril assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of cell population proliferation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within negative regulation of hematopoietic stem cell migration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of neutrophil chemotaxis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neuron migration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of axon extension involved in axon guidance	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast primordium migration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast primordium migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of axon extension	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of inflammatory response to wounding	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of intracellular pH	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of neutrophil chemotaxis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal ganglion cell axon guidance	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within retinal ganglion cell axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within striated muscle cell development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within trigeminal sensory nucleus development	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info
is_active_in migrasome	IMP Inferred from Mutant Phenotype more info	PubMed

General protein information

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Preferred Names: chemokine (C-X-C motif) ligand 12a (stromal cell-derived factor 1)

Names: chemokine ligand 12; unm t30516; unm_t30516

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_178307.2 → NP_840092.1 chemokine (C-X-C motif) ligand 12a (stromal cell-derived factor 1) precursor

See identical proteins and their annotated locations for NP_840092.1

Status: PROVISIONAL

Source sequence(s)

AY577011

UniProtKB/TrEMBL

C5IG41, Q8AV10

Related

ENSDARP00000053945.3, ENSDART00000053946.4

Conserved Domains (1) summary

cd00273
Location:29 → 89

Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...