About   Help   FAQ
Xcl1 Gene Detail
Summary
  • Symbol
    Xcl1
  • Name
    chemokine (C motif) ligand 1
  • Synonyms
    ATAC, Lptn, LTN, lymphotactin, SCM-1, SCM-1a, Scyc1
  • Feature Type
    protein coding gene
  • IDs
    MGI:104593
    NCBI Gene: 16963
  • Alliance
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr1:164931648-164935510 bp, - strand
  • From NCBI annotation of GRCm38

    View this region in JBrowse

  • Genome Browsers
  • Genetic Map
    Chromosome 1, 72.26 cM
  • Mapping Data
    7 experiments
Strain
Comparison
more
  • SNPs within 2kb
    55 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_104593
protein coding gene Chr1:164931644-164935527 (-)
129S1/SvImJ MGP_129S1SvImJ_G0016687
protein coding gene Chr1:170379771-170383654 (-)
A/J MGP_AJ_G0016668
protein coding gene Chr1:163436272-163440155 (-)
AKR/J MGP_AKRJ_G0016634
protein coding gene Chr1:168390241-168394124 (-)
BALB/cJ MGP_BALBcJ_G0016629
protein coding gene Chr1:163931707-163935590 (-)
C3H/HeJ MGP_C3HHeJ_G0016453
protein coding gene Chr1:168585595-168589478 (-)
C57BL/6NJ MGP_C57BL6NJ_G0017090
protein coding gene Chr1:176100272-176104155 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0014799
protein coding gene Chr1:155378674-155382493 (-)
CAST/EiJ MGP_CASTEiJ_G0016033
protein coding gene Chr1:168245638-168249519 (-)
CBA/J MGP_CBAJ_G0016428
protein coding gene Chr1:182358199-182362082 (-)
DBA/2J MGP_DBA2J_G0016534
protein coding gene Chr1:162337361-162341244 (-)
FVB/NJ MGP_FVBNJ_G0016532
protein coding gene Chr1:160786167-160790050 (-)
LP/J MGP_LPJ_G0016605
protein coding gene Chr1:171474159-171478042 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0016557
protein coding gene Chr1:189893099-189896982 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0017126
protein coding gene Chr1:168236889-168240772 (-)
PWK/PhJ MGP_PWKPhJ_G0015819
protein coding gene Chr1:161526855-161530837 (-)
SPRET/EiJ MGP_SPRETEiJ_G0015606
protein coding gene Chr1:167106886-167110782 (-)
WSB/EiJ MGP_WSBEiJ_G0016095
protein coding gene Chr1:168388981-168392864 (-)



Homology
more
  • Human Ortholog
    XCL1, X-C motif chemokine ligand 1
  • Vertebrate Orthologs
    9
  • Human Ortholog
    XCL1, X-C motif chemokine ligand 1
    Orthology source: HomoloGene, HGNC
  • Synonyms
    ATAC, LPTN, LTN, SCM1, SCM-1, SCM-1a, SCM1A, SCYC1
  • Links
    NCBI Gene ID: 6375
    neXtProt AC: NX_P47992
    UniProt: P47992

  • Chr Location
    1q24.2; chr1:168574128-168582077 (+)  GRCh38.p7

  • Human Ortholog
    XCL2, X-C motif chemokine ligand 2
    Orthology source: HGNC
  • Synonyms
    SCM-1b, SCM1B, SCYC2
  • Links
    NCBI Gene ID: 6846
    neXtProt AC: NX_Q9UBD3
    UniProt: Q9UBD3

  • Chr Location
    1q24.2; chr1:168540765-168543997 (-)  GRCh38.p7

Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    13 phenotypes from 2 alleles in 2 genetic backgrounds
    4 phenotypes from multigenic genotypes
    9 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.
Mice homozygous for a knock-out allele exhibit decreased stimulated cytotoxic T cell cytolysis.
Gene Ontology
(GO)
Classifications
less
  • 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 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
less
Expression Overview

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
  • Tissues
  • cDNA Data
  • Literature Summary
  • Comparison Matrix
  • Interactions
    less
    Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 16963 NCBI Gene Model | MGI Sequence Detail 3863 C57BL/6J ±  kb
    transcript NM_008510 RefSeq | MGI Sequence Detail 537 C57BL/6  
    polypeptide P47993 UniProt | EBI | MGI Sequence Detail 114 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 10
      cDNA 10

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-26027, MGI:2138317
    References
    more
    • Summaries
      All 53
      Developmental Gene Expression 1
      Gene Ontology 15
      Phenotypes 9
    • Earliest
      J:29507 Kelner GS, et al., Lymphotactin: a cytokine that represents a new class of chemokine. Science. 1994 Nov 25;266(5189):1395-9
    • Latest
      J:250652 Matsumoto N, et al., A Novel alpha9 Integrin Ligand, XCL1/Lymphotactin, Is Involved in the Development of Murine Models of Autoimmune Diseases. J Immunol. 2017 Jul 1;199(1):82-90

    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
    Citing These Resources
    Funding Information
    Warranty Disclaimer & Copyright Notice
    Send questions and comments to User Support.
    last database update
    11/06/2018
    MGI 6.13
    The Jackson Laboratory