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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
    gene page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr1:164759216-164763094 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 1, 72.26 cM
  • Mapping Data
    7 experiments
Strain
Comparison
more
  • SNPs within 2kb
    222 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
    1
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_104593
 protein coding gene Chr1:164759213-164763096 (-)
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
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    XCL1, X-C motif chemokine ligand 1
  • Synonyms
    ATAC, LPTN, LTN, SCM-1, SCM1, SCM-1a, SCM1A, SCYC1
  • Links
    NCBI Gene ID: 6375
    neXtProt AC: NX_P47992
    UniProt: P47992

  • Chr Location
    1q24.2; chr1:168576605-168582069 (+)  GRCh38
  • Human Ortholog
    XCL2, X-C motif chemokine ligand 2
  • Synonyms
    SCM-1b, SCM1B, SCYC2
  • Links
    NCBI Gene ID: 6846
    neXtProt AC: NX_Q9UBD3
    UniProt: Q9UBD3

  • Chr Location
    1q24.2; chr1:168540768-168543997 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    13 phenotypes from 2 alleles in 2 genetic backgrounds
    4 phenotypes from multigenic genotypes
    13 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
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.
Mice homozygous for a knock-out allele exhibit decreased stimulated cytotoxic T cell cytolysis.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    53
  • GO References
    15
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.
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
    730
  • Tissues
    15
  • cDNA Data
    10
  • Literature Summary
    1
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 16963 NCBI Gene Model | MGI Sequence Detail 3879 C57BL/6J ±  kb
    transcript NM_008510 RefSeq | MGI Sequence Detail 518 ZRU/MplStud  
    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 58
      Developmental Gene Expression 1
      Gene Ontology 15
      Phenotypes 13
    • 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:313522 Ghilas S, et al., Natural killer cells and dendritic epidermal gammadelta T cells orchestrate type 1 conventional DC spatiotemporal repositioning toward CD8(+) T cells. iScience. 2021 Sep 24;24(9):103059
    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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    Send questions and comments to User Support.     		last database update
    12/10/2024
    MGI 6.24     		The Jackson Laboratory