Cxcl13 MGI Mouse Gene Detail - MGI:1888499 - C-X-C motif chemokine ligand 13

Symbol

Cxcl13
Name

C-X-C motif chemokine ligand 13
Synonyms

4631412M08Rik, ANGIE2, BCA-1, BLC, Scyb13

Feature Type

protein coding gene
IDs

MGI:1888499
NCBI Gene: 55985
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr5:96104810-96108927 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 47.29 cM, cytoband E3
Mapping Data

3 experiments

SNPs within 2kb

176 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1888499	protein coding gene	Chr5:96104785-96108927 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0029762	protein coding gene	Chr5:97175084-97179202 (+)
A/J	MGP_AJ_G0029728	protein coding gene	Chr5:93616017-93620134 (+)
AKR/J	MGP_AKRJ_G0029674	protein coding gene	Chr5:96744476-96748593 (+)
BALB/cJ	MGP_BALBcJ_G0029738	protein coding gene	Chr5:94617898-94622015 (+)
C3H/HeJ	MGP_C3HHeJ_G0029461	protein coding gene	Chr5:97090077-97094194 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0030193	protein coding gene	Chr5:101353349-101357466 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0027428	protein coding gene	Chr5:89043721-89049730 (+)
CAST/EiJ	MGP_CASTEiJ_G0028871	protein coding gene	Chr5:95660556-95664675 (+)
CBA/J	MGP_CBAJ_G0029431	protein coding gene	Chr5:104848419-104852536 (+)
DBA/2J	MGP_DBA2J_G0029575	protein coding gene	Chr5:93829318-93833435 (+)
FVB/NJ	MGP_FVBNJ_G0029534	protein coding gene	Chr5:92666183-92670300 (+)
LP/J	MGP_LPJ_G0029663	protein coding gene	Chr5:97846248-97850366 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0029563	protein coding gene	Chr5:109876713-109880830 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0030226	protein coding gene	Chr5:96173725-96177842 (+)
PWK/PhJ	MGP_PWKPhJ_G0028590	protein coding gene	Chr5:92246437-92250554 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0028425	protein coding gene	Chr5:93848265-93852400 (+)
WSB/EiJ	MGP_WSBEiJ_G0028950	protein coding gene	Chr5:96497571-96501689 (+)

Human Ortholog

CXCL13, C-X-C motif chemokine ligand 13

Vertebrate Orthologs

2

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CXCL13, C-X-C motif chemokine ligand 13
Synonyms

ANGIE, ANGIE2, BCA-1, BCA1, BLC, BLR1L, SCYB13
Links

HGNC:10639

NCBI Gene ID: 10563

neXtProt AC: NX_O43927

UniProt: O43927
Chr Location

4q21.1; chr4:77511753-77611834 (+) GRCh38

MGI Vertebrate Homology

Cxcl13 stringent orthology
1 human;1 mouse;1 rat
HCOP

vertebrate homology predictions: CXCL13
Gene Tree

Cxcl13

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Phenotype Summary

23 phenotypes from 5 alleles in 6 genetic backgrounds
2 phenotypes from multigenic genotypes
54 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

18
Chemically induced (ENU)

1
Chemically induced (other)

1
Endonuclease-mediated

8
Gene trapped

1
Radiation induced

1
Spontaneous

1
Targeted

2
Transgenic

3
Genomic Mutations

3 involving Cxcl13
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

23 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

B lymphocyte trafficking is impaired in homozygous mutant mice.

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All GO Annotations

50
GO References

10

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

771
Tissues

34
cDNA Data

44
Literature Summary

22

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas

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All Sequences

35
RefSeq

2
UniProt

3
CCDS

CCDS19447.1

Ensembl

ENSMUSG00000023078 (Evidence)
NCBI Gene

55985

			Length	Strain/Species	Flank
genomic	ENSMUSG00000023078	Ensembl Gene Model \| MGI Sequence Detail	4118	C57BL/6J	± kb
transcript	ENSMUST00000023840	Ensembl \| MGI Sequence Detail	1150	Not Applicable
polypeptide	ENSMUSP00000023840	Ensembl \| MGI Sequence Detail	109	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000006067 C-X-C motif chemokine 13

(term hierarchy)
PDB

5IZB, 5L7M
InterPro Domains

IPR039809 Chemokine beta/gamma/delta

IPR001811 Chemokine interleukin-8-like domain

IPR036048 Chemokine interleukin-8-like superfamily

IPR001089 CXC chemokine

IPR018048 CXC chemokine, conserved site

IPR033899 CXC Chemokine domain

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All nucleic 47

cDNA 44

Primer pair 2

Other 1

Microarray probesets 4

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MGI:1918033

Summaries

All 128

Developmental Gene Expression 22

Gene Ontology 10

Phenotypes 54
Earliest

J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Cxcl13:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr47388	Chr5:96104775-96104792 (+)	-26 bp
Tssr47389	Chr5:96106575-96106597 (+)	1,776 bp
Tssr47390	Chr5:96108168-96108173 (+)	3,361 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 11/19/2024 MGI 6.24