Cd5 MGI Mouse Gene Detail - MGI:88340

Symbol

Cd5
Name

CD5 antigen
Synonyms

Ly-1, Ly-12, Ly-A, Lyt-1

Feature Type

protein coding gene
IDs

MGI:88340
NCBI Gene: 12507
Alliance

gene page
Transcription Start Sites

9 TSS

Sequence Map

Chr19:10695471-10716390 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 7.16 cM
Mapping Data

63 experiments

SNPs within 2kb

759 from dbSNP Build 142
Strain Annotations

18
RFLP

4

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_88340	protein coding gene	Chr19:10694480-10716390 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0024856	protein coding gene	Chr19:8077507-8098382 (-)
A/J	MGP_AJ_G0024824	protein coding gene	Chr19:7533830-7555099 (-)
AKR/J	MGP_AKRJ_G0024799	protein coding gene	Chr19:7827593-7848362 (-)
BALB/cJ	MGP_BALBcJ_G0024824	protein coding gene	Chr19:7575415-7596228 (-)
C3H/HeJ	MGP_C3HHeJ_G0024590	protein coding gene	Chr19:7724348-7745090 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0025272	protein coding gene	Chr19:8434233-8458286 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022699	protein coding gene	Chr19:7953509-7974620 (-)
CAST/EiJ	MGP_CASTEiJ_G0024063	protein coding gene	Chr19:7363451-7384181 (-)
CBA/J	MGP_CBAJ_G0024564	protein coding gene	Chr19:8479266-8500003 (-)
DBA/2J	MGP_DBA2J_G0024691	protein coding gene	Chr19:7539321-7560063 (-)
FVB/NJ	MGP_FVBNJ_G0024658	protein coding gene	Chr19:7584257-7604906 (-)
LP/J	MGP_LPJ_G0024778	protein coding gene	Chr19:8037699-8058550 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0024685	protein coding gene	Chr19:8383339-8405289 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025320	protein coding gene	Chr19:7842323-7863152 (-)
PWK/PhJ	MGP_PWKPhJ_G0023808	protein coding gene	Chr19:6984871-7006139 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0023613	protein coding gene	Chr19:7023716-7044726 (-)
WSB/EiJ	MGP_WSBEiJ_G0024125	protein coding gene	Chr19:7739923-7761664 (-)

Human Ortholog

CD5, CD5 molecule

Vertebrate Orthologs

2

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CD5, CD5 molecule
Synonyms

LEU1, T1
Links

HGNC:1685

NCBI Gene ID: 921

neXtProt AC: NX_P06127

UniProt: P06127
Chr Location

11q12.2; chr11:61093963-61127852 (+) GRCh38

MGI Vertebrate Homology

Cd5 stringent orthology
1 human;1 mouse;1 rat
HCOP

vertebrate homology predictions: CD5
Gene Tree

Cd5

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Phenotype Summary

18 phenotypes from 3 alleles in 4 genetic backgrounds
10 phenotypes from multigenic genotypes
59 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

16
Endonuclease-mediated

5
Spontaneous

2
Targeted

9
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

36 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous mutation of this gene does not result in a phenotype.

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All GO Annotations

10
GO References

14

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

716
Tissues

7
cDNA Data

19
Literature Summary

3

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas

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All Sequences

45
RefSeq

4
UniProt

7
CCDS

CCDS29586.1

Ensembl

ENSMUSG00000024669 (Evidence)
NCBI Gene

12507

			Length	Strain/Species	Flank
genomic	12507	NCBI Gene Model \| MGI Sequence Detail	20920	C57BL/6J	± kb
transcript	NM_007650	RefSeq \| MGI Sequence Detail	2069	ZRU/MplStud
polypeptide	P13379	UniProt \| EBI \| MGI Sequence Detail	494	Not Applicable

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UniProt

7 Sequences
Protein Ontology

PR:000001839 T-cell surface glycoprotein CD5

(term hierarchy)
InterPro Domains

IPR001190 SRCR domain

IPR017448 SRCR-like domain

IPR036772 SRCR-like domain superfamily

IPR003566 T-cell surface glycoprotein CD5
GlyGen

P13379 4 sites

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All nucleic 23

Genomic 2

cDNA 19

Primer pair 1

Other 1

Microarray probesets 3

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MGD-MRK-11947, MGD-MRK-11950, MGD-MRK-12073, MGD-MRK-1866

Summaries

All 163

Developmental Gene Expression 3

Gene Ontology 14

Phenotypes 59
Earliest

J:5073 Boyse EA, et al., Ly-A and Ly-B: two systems of lymphocyte isoantigens in the mouse. Proc R Soc Lond B Biol Sci. 1968 Jun 11;170(19):175-93
Latest

J:359481 Dautan D, et al., Cortico-cortical transfer of socially derived information gates emotion recognition. Nat Neurosci. 2024 Jul;27(7):1318-1332

TSS for Cd5:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr158235	Chr19:10718087-10718110 (-)	-1,709 bp
Tssr158234	Chr19:10716335-10716346 (-)	49 bp
Tssr158233	Chr19:10716303-10716320 (-)	78 bp
Tssr158232	Chr19:10716233-10716299 (-)	124 bp
Tssr158231	Chr19:10716208-10716230 (-)	171 bp
Tssr158230	Chr19:10703657-10703661 (-)	12,731 bp
Tssr158229	Chr19:10702665-10702675 (-)	13,720 bp
Tssr158228	Chr19:10696782-10696794 (-)	19,602 bp
Tssr158227	Chr19:10696486-10696490 (-)	19,902 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 12/17/2024 MGI 6.24