Ly96 (lymphocyte antigen 96) - Rat Genome Database

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Gene: Ly96 (lymphocyte antigen 96) Chinchilla lanigera
Analyze
Symbol: Ly96
Name: lymphocyte antigen 96
RGD ID: 8890808
Description: ENCODES a protein that exhibits lipopolysaccharide immune receptor activity (ortholog); INVOLVED IN cellular response to lipopolysaccharide (ortholog); detection of lipopolysaccharide (ortholog); lipopolysaccharide-mediated signaling pathway (ortholog); PARTICIPATES IN Toll-like receptor signaling pathway; ASSOCIATED WITH Bacterial Keratitis (ortholog); carcinoma (ortholog); Charcot-Marie-Tooth disease axonal type 2K (ortholog); FOUND IN lipopolysaccharide receptor complex (ortholog); plasma membrane (ortholog); receptor complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554446,356,154 - 6,387,529 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554446,356,121 - 6,387,350 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Ly96
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554446,356,154 - 6,387,529 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554446,356,121 - 6,387,350 (-)NCBIChiLan1.0ChiLan1.0
LY96
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38873,991,392 - 74,099,857 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl873,991,392 - 74,029,079 (+)EnsemblGRCh38hg38GRCh38
GRCh37874,903,627 - 74,941,314 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36875,066,144 - 75,103,859 (+)NCBINCBI36Build 36hg18NCBI36
Build 34875,066,143 - 75,103,859NCBI
Celera870,901,437 - 70,939,164 (+)NCBICelera
Cytogenetic Map8q21.11NCBI
HuRef870,394,473 - 70,432,211 (+)NCBIHuRef
CHM1_1874,955,493 - 74,993,242 (+)NCBICHM1_1
T2T-CHM13v2.0874,420,655 - 74,529,114 (+)NCBIT2T-CHM13v2.0
Ly96
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39116,758,680 - 16,779,829 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl116,758,275 - 16,779,835 (+)EnsemblGRCm39 Ensembl
GRCm38116,688,456 - 16,709,605 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl116,688,051 - 16,709,611 (+)EnsemblGRCm38mm10GRCm38
MGSCv37116,678,537 - 16,699,686 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36116,673,670 - 16,694,819 (+)NCBIMGSCv36mm8
Celera116,621,307 - 16,642,544 (+)NCBICelera
Cytogenetic Map1A3NCBI
cM Map15.1NCBI
Ly96
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr857,365,536 - 7,397,864 (-)NCBIGRCr8
mRatBN7.252,582,233 - 2,612,357 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl52,582,254 - 2,612,386 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx54,700,247 - 4,729,411 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.056,339,109 - 6,368,273 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.056,037,630 - 6,066,747 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.051,972,212 - 1,989,448 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.051,967,544 - 1,984,775 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.451,701,969 - 1,705,247 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera52,204,184 - 2,228,082 (-)NCBICelera
Cytogenetic Map5q11NCBI
LY96
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2789,734,070 - 89,780,203 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1865,362,059 - 65,408,612 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0870,525,058 - 70,567,839 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1872,169,986 - 72,207,380 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl872,169,986 - 72,207,372 (+)Ensemblpanpan1.1panPan2
LY96
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12922,493,757 - 22,515,147 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2922,493,896 - 22,515,117 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2922,758,770 - 22,780,161 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02922,604,586 - 22,625,987 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2922,604,724 - 22,625,957 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12922,663,372 - 22,684,762 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02922,698,527 - 22,719,904 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02922,981,883 - 23,003,258 (+)NCBIUU_Cfam_GSD_1.0
Ly96
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530356,777,115 - 56,795,405 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366482,653,252 - 2,671,453 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LY96
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl461,926,064 - 61,950,697 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1461,919,806 - 61,950,712 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2467,631,664 - 67,656,017 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LY96
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1869,591,885 - 69,629,939 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl869,591,941 - 69,630,274 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603971,667,502 - 71,779,874 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ly96
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474417,208,990 - 17,241,347 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474417,209,285 - 17,241,347 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000003405   ⟹   ENSCLAP00000003338
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554446,356,154 - 6,387,529 (-)Ensembl
RefSeq Acc Id: XM_005392077   ⟹   XP_005392134
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554446,356,121 - 6,387,350 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005392134 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000003338
  ENSCLAP00000003338.1
RefSeq Acc Id: XP_005392134   ⟸   XM_005392077
- UniProtKB: A0A8C2UNW3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000003338   ⟸   ENSCLAT00000003405
Protein Domains
MD-2-related lipid-recognition


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000002393 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000003405 ENTREZGENE
  ENSCLAT00000003405.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.770 UniProtKB/TrEMBL
InterPro Ig_E-set UniProtKB/TrEMBL
  LY96 UniProtKB/TrEMBL
  ML_dom UniProtKB/TrEMBL
NCBI Gene Ly96 ENTREZGENE
PANTHER LYMPHOCYTE ANTIGEN 96 UniProtKB/TrEMBL
  PTHR15218 UniProtKB/TrEMBL
Pfam E1_DerP2_DerF2 UniProtKB/TrEMBL
SMART SM00737 UniProtKB/TrEMBL
Superfamily-SCOP SSF81296 UniProtKB/TrEMBL
UniProt A0A8C2UNW3 ENTREZGENE, UniProtKB/TrEMBL