LY6G6E (lymphocyte antigen 6 family member G6E (pseudogene)) - Rat Genome Database

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Gene: LY6G6E (lymphocyte antigen 6 family member G6E (pseudogene)) Homo sapiens
Analyze
Symbol: LY6G6E
Name: lymphocyte antigen 6 family member G6E (pseudogene)
RGD ID: 1348643
HGNC Page HGNC:13934
Description: Predicted to enable acetylcholine receptor activator activity and acetylcholine receptor binding activity. Predicted to be involved in acetylcholine receptor signaling pathway and desensitization of G protein-coupled receptor signaling pathway. Predicted to be located in synapse. Predicted to be active in plasma membrane.
Type: pseudo (Ensembl: transcribed_unitary_pseudogene)
RefSeq Status: VALIDATED
Previously known as: C6orf22; FLJ50806; G6e; lymphocyte antigen 6 complex, locus G6E; lymphocyte antigen 6 complex, locus G6E (pseudogene); lymphocyte antigen 6 family member G6E
RGD Orthologs
Mouse
Rat
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,711,976 - 31,714,065 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,712,341 - 31,713,812 (-)EnsemblGRCh38hg38GRCh38
GRCh37631,679,753 - 31,681,842 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,788,092 - 31,789,568 (-)NCBINCBI36Build 36hg18NCBI36
Build 34631,788,091 - 31,789,568NCBI
Celera633,277,981 - 33,280,070 (-)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef631,465,981 - 31,468,070 (-)NCBIHuRef
CHM1_1631,681,870 - 31,683,959 (-)NCBICHM1_1
T2T-CHM13v2.0631,565,011 - 31,567,100 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
plasma membrane  (IBA,IEA)
synapse  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10384126   PMID:10553908   PMID:12079290   PMID:12477932   PMID:16344560   PMID:17008713   PMID:19116923   PMID:19851445  


Genomics

Comparative Map Data
LY6G6E
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,711,976 - 31,714,065 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,712,341 - 31,713,812 (-)EnsemblGRCh38hg38GRCh38
GRCh37631,679,753 - 31,681,842 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,788,092 - 31,789,568 (-)NCBINCBI36Build 36hg18NCBI36
Build 34631,788,091 - 31,789,568NCBI
Celera633,277,981 - 33,280,070 (-)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef631,465,981 - 31,468,070 (-)NCBIHuRef
CHM1_1631,681,870 - 31,683,959 (-)NCBICHM1_1
T2T-CHM13v2.0631,565,011 - 31,567,100 (-)NCBIT2T-CHM13v2.0
Ly6g6e
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,295,843 - 35,297,781 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1735,295,878 - 35,297,780 (+)EnsemblGRCm39 Ensembl
GRCm381735,076,868 - 35,078,804 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,076,902 - 35,078,804 (+)EnsemblGRCm38mm10GRCm38
MGSCv371735,213,887 - 35,215,749 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361734,684,998 - 34,686,860 (+)NCBIMGSCv36mm8
Celera1738,173,630 - 38,175,492 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.59NCBI
Ly6g6e
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,749,352 - 3,752,578 (-)NCBIGRCr8
mRatBN7.2203,744,999 - 3,749,867 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,744,999 - 3,750,849 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx204,444,330 - 4,446,202 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,806,383 - 3,808,255 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,344,227 - 4,346,110 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0205,063,148 - 5,069,032 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,067,330 - 5,068,624 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,137,208 - 7,141,962 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,808,707 - 3,810,443 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1203,808,933 - 3,810,670 (-)NCBI
Celera204,279,251 - 4,280,984 (+)NCBICelera
Cytogenetic Map20p12NCBI
LOC102154767
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,189,910 - 1,196,762 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,326,477 - 1,335,548 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0121,335,285 - 1,344,365 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1121,194,600 - 1,203,661 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0121,261,776 - 1,270,868 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0121,329,227 - 1,338,498 (-)NCBIUU_Cfam_GSD_1.0
LOC110261493
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1723,823,392 - 23,825,431 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1150
Count of miRNA genes:544
Interacting mature miRNAs:601
Transcripts:ENST00000383418, ENST00000399142, ENST00000409239, ENST00000450147
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Markers in Region
D6S273  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37631,683,685 - 31,683,846UniSTSGRCh37
GRCh37631,683,685 - 31,683,820UniSTSGRCh37
GRCh37631,683,685 - 31,683,839UniSTSGRCh37
GRCh37631,683,685 - 31,683,940UniSTSGRCh37
GRCh37631,683,685 - 31,683,830UniSTSGRCh37
GRCh37631,683,818 - 31,683,952UniSTSGRCh37
GRCh37631,683,684 - 31,683,820UniSTSGRCh37
GRCh37631,683,678 - 31,683,820UniSTSGRCh37
Build 36631,791,797 - 31,791,931RGDNCBI36
Celera633,281,913 - 33,282,056UniSTS
Celera633,281,913 - 33,282,072UniSTS
Celera633,281,913 - 33,282,065UniSTS
Celera633,281,913 - 33,282,166UniSTS
Celera633,281,912 - 33,282,046UniSTS
Celera633,281,913 - 33,282,046UniSTS
Celera633,282,044 - 33,282,178RGD
Celera633,281,906 - 33,282,046UniSTS
Cytogenetic Map6p21.3UniSTS
HuRef631,469,913 - 31,470,048UniSTS
HuRef631,469,906 - 31,470,048UniSTS
HuRef631,469,913 - 31,470,058UniSTS
HuRef631,469,913 - 31,470,074UniSTS
HuRef631,469,913 - 31,470,067UniSTS
HuRef631,469,913 - 31,470,168UniSTS
HuRef631,470,046 - 31,470,180UniSTS
HuRef631,469,912 - 31,470,048UniSTS
Marshfield Genetic Map644.96UniSTS
Marshfield Genetic Map644.96RGD
Genethon Genetic Map644.9UniSTS
TNG Radiation Hybrid Map617000.0UniSTS
deCODE Assembly Map651.31UniSTS
Stanford-G3 RH Map61571.0UniSTS
GeneMap99-GB4 RH Map6119.71UniSTS
Whitehead-RH Map6175.4UniSTS
NCBI RH Map6495.3UniSTS
GeneMap99-G3 RH Map61703.0UniSTS
22-38114  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37631,679,505 - 31,679,728UniSTSGRCh37
Build 36631,787,484 - 31,787,707RGDNCBI36
Celera633,277,723 - 33,277,956RGD
Cytogenetic Map6p21.3UniSTS
HuRef631,465,723 - 31,465,956UniSTS
D6S2783  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37631,679,572 - 31,679,694UniSTSGRCh37
Build 36631,787,551 - 31,787,673RGDNCBI36
Celera633,277,790 - 33,277,922RGD
Cytogenetic Map6p21.3UniSTS
HuRef631,465,790 - 31,465,922UniSTS
N3_2_4  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37631,679,374 - 31,679,785UniSTSGRCh37
Build 36631,787,353 - 31,787,764RGDNCBI36
Celera633,277,592 - 33,278,013RGD
Cytogenetic Map6p21.3UniSTS
HuRef631,465,592 - 31,466,013UniSTS
UniSTS:480737  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37631,680,113 - 31,681,589UniSTSGRCh37
Celera633,278,341 - 33,279,817UniSTS
HuRef631,466,341 - 31,467,817UniSTS
D6S273  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6p21.3UniSTS
D6S273  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6p21.3UniSTS
D6S273  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6p21.3UniSTS
D6S273  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6p21.3UniSTS
D6S273  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6p21.3UniSTS
D6S273  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6p21.3UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 1 4 5 5
Low 68 567 485 20 715 15 794 3 11 8 95 811 6 2 439
Below cutoff 824 995 613 179 462 111 1566 644 1853 86 771 494 71 581 995 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_003673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_024541 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF129756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ012008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ245419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ315538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ315539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL662899 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL670886 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL844216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BA000025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC069141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX248244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR354443 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR759787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR936239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA786728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENST00000383418   ⟹   ENSP00000372910
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl631,712,336 - 31,713,812 (-)Ensembl
RefSeq Acc Id: ENST00000399142   ⟹   ENSP00000382095
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl631,712,341 - 31,713,812 (-)Ensembl
RefSeq Acc Id: ENST00000409239   ⟹   ENSP00000386842
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl631,711,771 - 31,714,065 (-)Ensembl
RefSeq Acc Id: ENST00000450147   ⟹   ENSP00000407275
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl631,712,341 - 31,713,812 (-)Ensembl
RefSeq Acc Id: ENST00000697727
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl631,711,771 - 31,714,065 (-)Ensembl
RefSeq Acc Id: NR_003673
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38631,712,341 - 31,714,065 (-)NCBI
GRCh37631,679,753 - 31,681,842 (-)RGD
Build 36631,788,092 - 31,789,568 (-)NCBI Archive
Celera633,277,981 - 33,280,070 (-)RGD
HuRef631,465,981 - 31,468,070 (-)RGD
CHM1_1631,682,235 - 31,683,959 (-)NCBI
T2T-CHM13v2.0631,565,376 - 31,567,100 (-)NCBI
Sequence:
RefSeq Acc Id: NR_024541
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38631,711,976 - 31,714,065 (-)NCBI
GRCh37631,679,753 - 31,681,842 (-)RGD
Celera633,277,981 - 33,280,070 (-)RGD
HuRef631,465,981 - 31,468,070 (-)RGD
CHM1_1631,681,870 - 31,683,959 (-)NCBI
T2T-CHM13v2.0631,565,011 - 31,567,100 (-)NCBI
Sequence:
RefSeq Acc Id: ENSP00000382095   ⟸   ENST00000399142
RefSeq Acc Id: ENSP00000407275   ⟸   ENST00000450147
RefSeq Acc Id: ENSP00000386842   ⟸   ENST00000409239
RefSeq Acc Id: ENSP00000372910   ⟸   ENST00000383418

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0B4J1T7-F1-model_v2 AlphaFold A0A0B4J1T7 1-125 view protein structure

Promoters
RGD ID:6872592
Promoter ID:EPDNEW_H9461
Type:initiation region
Name:LY6G6E_1
Description:lymphocyte antigen 6 family member G6E
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38631,713,901 - 31,713,961EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:13934 AgrOrtholog
COSMIC LY6G6E COSMIC
Ensembl Genes ENSG00000206401 UniProtKB/TrEMBL
  ENSG00000224708 UniProtKB/TrEMBL
  ENSG00000226187 UniProtKB/TrEMBL
  ENSG00000235769 UniProtKB/TrEMBL
  ENSG00000236210 UniProtKB/TrEMBL
  ENSG00000237482 UniProtKB/TrEMBL
  ENSG00000255552 Ensembl
Ensembl Transcript ENST00000383417.8 UniProtKB/TrEMBL
  ENST00000419000.6 UniProtKB/TrEMBL
  ENST00000419767.6 UniProtKB/TrEMBL
  ENST00000430237.6 UniProtKB/TrEMBL
  ENST00000431420.6 UniProtKB/TrEMBL
  ENST00000431644.6 UniProtKB/TrEMBL
  ENST00000434670.6 UniProtKB/TrEMBL
  ENST00000435051.6 UniProtKB/TrEMBL
  ENST00000435369.6 UniProtKB/TrEMBL
  ENST00000443544.6 UniProtKB/TrEMBL
  ENST00000446610.6 UniProtKB/TrEMBL
  ENST00000453077.6 UniProtKB/TrEMBL
  ENST00000469626.5 UniProtKB/TrEMBL
  ENST00000546405.1 UniProtKB/TrEMBL
  ENST00000547421.1 UniProtKB/TrEMBL
  ENST00000547676.1 UniProtKB/TrEMBL
  ENST00000548716.1 UniProtKB/TrEMBL
  ENST00000548848.1 UniProtKB/TrEMBL
  ENST00000550508.1 UniProtKB/TrEMBL
Gene3D-CATH 2.10.60.10 UniProtKB/TrEMBL
GTEx ENSG00000206401 GTEx
  ENSG00000224708 GTEx
  ENSG00000226187 GTEx
  ENSG00000235769 GTEx
  ENSG00000236210 GTEx
  ENSG00000237482 GTEx
  ENSG00000255552 GTEx
HGNC ID HGNC:13934 ENTREZGENE
Human Proteome Map LY6G6E Human Proteome Map
InterPro Ly6g6e UniProtKB/TrEMBL
  Snake_toxin-like_sf UniProtKB/TrEMBL
NCBI Gene 79136 ENTREZGENE
OMIM 610437 OMIM
PANTHER LYMPHOCYTE ANTIGEN 6 FAMILY MEMBER G6E UniProtKB/TrEMBL
  PTHR14569 UniProtKB/TrEMBL
PharmGKB PA37828 PharmGKB
Superfamily-SCOP SSF57302 UniProtKB/TrEMBL
UniProt A0A0B4J1T7_HUMAN UniProtKB/TrEMBL
  A0A0G2JKS1_HUMAN UniProtKB/TrEMBL
  A2ABS3_HUMAN UniProtKB/TrEMBL
  A2ABS4_HUMAN UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-09-26 LY6G6E  lymphocyte antigen 6 family member G6E (pseudogene)  LY6G6E  lymphocyte antigen 6 family member G6E  Symbol and/or name change 19259463 PROVISIONAL
2017-01-31 LY6G6E  lymphocyte antigen 6 family member G6E  LY6G6E  lymphocyte antigen 6 complex, locus G6E  Symbol and/or name change 5135510 APPROVED
2016-07-26 LY6G6E  lymphocyte antigen 6 complex, locus G6E  LY6G6E  lymphocyte antigen 6 complex, locus G6E (pseudogene)  Symbol and/or name change 5135510 APPROVED
2011-09-13 LY6G6E  lymphocyte antigen 6 complex, locus G6E (pseudogene)  LY6G6E  lymphocyte antigen 6 complex, locus G6E  Symbol and/or name change 5135510 APPROVED