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Ly9 Gene Detail
Summary
  • Symbol
    Ly9
  • Name
    lymphocyte antigen 9
  • Synonyms
    CD229, Lgp100, SLAMF3, T100
  • Feature Type
    protein coding gene
  • IDs
    MGI:96885
    NCBI Gene: 17085
  • Gene Overview
    MyGene.info: LY9
  • Alliance
  • Transcription Start Sites
    2 TSS
Location &
Maps
more
  • Sequence Map
    Chr1:171588624-171607410 bp, - strand
  • From Ensembl annotation of GRCm38

    View this region in JBrowse

  • Genome Browsers
  • Genetic Map
    Chromosome 1, 79.54 cM
  • Mapping Data
    45 experiments
Strain
Comparison
more
  • SNPs within 2kb
    209 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_96885
protein coding gene Chr1:171588613-171607410 (-)
129S1/SvImJ MGP_129S1SvImJ_G0016767
protein coding gene Chr1:177409684-177428300 (-)
A/J MGP_AJ_G0016746
protein coding gene Chr1:170158238-170177549 (-)
AKR/J MGP_AKRJ_G0016712
protein coding gene Chr1:175288464-175311895 (-)
BALB/cJ MGP_BALBcJ_G0016707
protein coding gene Chr1:170697482-170715807 (-)
C3H/HeJ MGP_C3HHeJ_G0016531
protein coding gene Chr1:175862441-175882742 (-)
C57BL/6NJ MGP_C57BL6NJ_G0017169
protein coding gene Chr1:183298817-183319700 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0014876
protein coding gene Chr1:161879043-161897071 (-)
CAST/EiJ MGP_CASTEiJ_G0016112
protein coding gene Chr1:175229585-175252558 (-)
CBA/J MGP_CBAJ_G0016505
protein coding gene Chr1:189827914-189847609 (-)
DBA/2J MGP_DBA2J_G0016612
protein coding gene Chr1:169103239-169122443 (-)
FVB/NJ MGP_FVBNJ_G0016609
protein coding gene Chr1:167356798-167375230 (-)
LP/J MGP_LPJ_G0016683
protein coding gene Chr1:178493894-178511511 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0016636
protein coding gene Chr1:197122930-197141612 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0017205
protein coding gene Chr1:175157248-175175965 (-)
PWK/PhJ MGP_PWKPhJ_G0015897
protein coding gene Chr1:168464354-168482921 (-)
SPRET/EiJ MGP_SPRETEiJ_G0015681
protein coding gene Chr1:174082501-174101721 (-)
WSB/EiJ MGP_WSBEiJ_G0016173
protein coding gene Chr1:175327461-175346427 (-)



Homology
more
  • Human Ortholog
    LY9, lymphocyte antigen 9
  • Vertebrate Orthologs
    6
  • Human Ortholog
    LY9, lymphocyte antigen 9
    Orthology source: HomoloGene, HGNC
  • Synonyms
    CD229, hly9, mLY9, SLAMF3
  • Links
    NCBI Gene ID: 4063
    neXtProt AC: NX_Q9HBG7
    UniProt: Q9HBG7

  • Chr Location
    1q23.3; chr1:160796074-160828256 (+)  GRCh38.p7

Mutations,
Alleles, and
Phenotypes
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  • Phenotype Summary
    3 phenotypes from 1 allele in 1 genetic background
    8 phenotype references
Phenotype Overview

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
immune system
integument
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
neoplasm
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
vision/eye

Click cells to view annotations.
This locus controls an antigen on thymocytes, lymphocytes and bone marrow cells. The a allele determines Ly9.1 antigen in A/J, 129/Re, BALB/c and C3H/He; the b allele determines antigen Ly9.2 in the C57 family of strains, HTI/Go, MA/My, F/St and C58/Lw. Null mutants are viable, healthy and fertile.
Gene Ontology
(GO)
Classifications
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  • All GO Annotations
  • GO References
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 death
cell differentiation
cell population proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
nucleic acid-templated transcription
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
non-membrane-bounded organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
synapse
vacuole
Click cells to view annotations.
Expression
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  • cDNA Data
  • Literature Summary
Interactions
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Sequences &
Gene Models
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Representative SequencesLengthStrain/SpeciesFlank
genomic ENSMUSG00000004707 Ensembl Gene Model | MGI Sequence Detail 18787 C57BL/6J ±  kb
transcript ENSMUST00000068878 Ensembl | MGI Sequence Detail 2488 Not Applicable  
polypeptide ENSMUSP00000069319 Ensembl | MGI Sequence Detail 654 Not Applicable  
For the selected sequence
Protein
Information
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Molecular
Reagents
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  • All nucleic 70
    Genomic 14
    cDNA 55
    Primer pair 1

    Microarray probesets 3
Other
Accession IDs
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MGD-MRK-12008, MGD-MRK-12051, MGI:2138373
References
more
  • Summaries
    All 74
    Developmental Gene Expression 1
    Gene Ontology 3
    Phenotypes 8
  • Earliest
    J:6136 Durda PJ, et al., T100: a new murine cell surface glycoprotein detected by anti-Lyt-2.1 serum. J Immunol. 1979 Apr;122(4):1407-12
  • Latest
    J:255600 Cuenca M, et al., Ly9 (SLAMF3) receptor differentially regulates iNKT cell development and activation in mice. Eur J Immunol. 2018 Jan;48(1):99-105

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
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last database update
08/13/2019
MGI 6.14
The Jackson Laboratory