Ly6e MGI Mouse Gene Detail - MGI:106651 - lymphocyte antigen 6 complex, locus E

Symbol

Ly6e
Name

lymphocyte antigen 6 complex, locus E
Synonyms

9804, Ly67, RIG-E, Sca-2, Tsa1, TSA-1

Feature Type

protein coding gene
IDs

MGI:106651
NCBI Gene: 17069
Member of

Ly6 cluster
Gene Overview

MyGene.info: LY6E
Alliance

gene page
Transcription Start Sites

11 TSS

Sequence Map

Chr15:74955051-74959905 bp, + strand
From NCBI annotation of GRCm38

View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 15, 34.29 cM
Mapping Data

7 experiments

SNPs within 2kb

52 from dbSNP Build 142
Strain Annotations

18
PCR

1
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_106651	protein coding gene	Chr15:74955051-74959905 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0021945	protein coding gene	Chr15:74772380-74777234 (+)
A/J	MGP_AJ_G0021902	protein coding gene	Chr15:72090723-72096222 (+)
AKR/J	MGP_AKRJ_G0021886	protein coding gene	Chr15:73989411-73994259 (+)
BALB/cJ	MGP_BALBcJ_G0021911	protein coding gene	Chr15:72108624-72113677 (+)
C3H/HeJ	MGP_C3HHeJ_G0021684	protein coding gene	Chr15:74092192-74097250 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0022351	protein coding gene	Chr15:77589280-77594134 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0019886	protein coding gene	Chr15:68460179-68465039 (+)
CAST/EiJ	MGP_CASTEiJ_G0021203	protein coding gene	Chr15:74912553-74917406 (+)
CBA/J	MGP_CBAJ_G0021650	protein coding gene	Chr15:80122421-80128837 (+)
DBA/2J	MGP_DBA2J_G0021775	protein coding gene	Chr15:71702331-71707185 (+)
FVB/NJ	MGP_FVBNJ_G0021757	protein coding gene	Chr15:70722703-70727557 (+)
LP/J	MGP_LPJ_G0021847	protein coding gene	Chr15:74856562-74861416 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0021780	protein coding gene	Chr15:85438304-85453376 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0022372	protein coding gene	Chr15:74327951-74334619 (+)
PWK/PhJ	MGP_PWKPhJ_G0020944	protein coding gene	Chr15:71802822-71807662 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0020784	protein coding gene	Chr15:74180427-74185272 (+)
WSB/EiJ	MGP_WSBEiJ_G0021255	protein coding gene	Chr15:74356096-74360959 (+)

Human Ortholog

LY6E, lymphocyte antigen 6 family member E

Vertebrate Orthologs

10

Human Ortholog

LY6E, lymphocyte antigen 6 family member E
Orthology source: HomoloGene, HGNC
Synonyms

RIGE, RIG-E, SCA2, SCA-2, TSA-1
Links

HGNC:6727

NCBI Gene ID: 4061

neXtProt AC: NX_Q16553

UniProt: Q16553
Chr Location

8q24.3; chr8:143018485-143022410 (+) GRCh38.p7

HomoloGene

Vertebrate Homology Class 56411
1 human;1 mouse;1 rat;1 chimpanzee;1 cattle;1 dog;3 chicken;1 macaque, rhesus
HCOP

human homology predictions: LY6E
Protein SuperFamily

Ly-6-like protein
Gene Tree

Ly6e

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References

1 with disease annotations

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Phenotype Summary

9 phenotypes from 1 allele in 1 genetic background
28 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

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.

All Mutations and Alleles

14
Chemically induced (other)

3
Endonuclease-mediated

1
Gene trapped

4
Radiation induced

2
Targeted

4
Genomic Mutations

5 involving Ly6e
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

13 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for disruptions in this gene die as embryos as a result of heart defects.

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All GO Annotations

17
GO References

4

External Resources

FuncBase

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.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

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

126
Tissues

49
cDNA Data

890
Literature Summary

10

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas

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Ly6e interacts with 171 markers (Mir1a-1, Mir1a-2, Mir1b, ...) View All

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All Sequences

88
RefSeq

12
UniProt

9
CCDS

CCDS27538.1
UniGene

788

Ensembl

ENSMUSG00000022587 (Evidence)
NCBI Gene

17069

			Length	Strain/Species	Flank
genomic	17069	NCBI Gene Model \| MGI Sequence Detail	4855	C57BL/6J	± kb
transcript	NM_001164036	RefSeq \| MGI Sequence Detail	2281	C57BL/6
polypeptide	Q64253	UniProt \| EBI \| MGI Sequence Detail	130	Not Applicable

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UniProt

9 Sequences
InterPro Domains

IPR016054 Ly-6 antigen/uPA receptor-like

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All nucleic 895

Genomic 1

cDNA 892

Primer pair 2

Microarray probesets 3

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MGD-MRK-15264, MGD-MRK-35109

Summaries

All 68

Developmental Gene Expression 10

Diseases 1

Gene Ontology 4

Phenotypes 28
Earliest

J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
Latest

J:263810 Langford MB, et al., Deletion of the Syncytin A receptor Ly6e impairs syncytiotrophoblast fusion and placental morphogenesis causing embryonic lethality in mice. Sci Rep. 2018 Mar 2;8(1):3961

TSS for Ly6e:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr131611	Chr15:74955611-74955629 (+)	569 bp
Tssr131612	Chr15:74955640-74955660 (+)	599 bp
Tssr131613	Chr15:74955906-74955921 (+)	863 bp
Tssr131614	Chr15:74956423-74956481 (+)	1,401 bp
Tssr131622	Chr15:74957469-74957474 (+)	2,421 bp
Tssr131623	Chr15:74957489-74957507 (+)	2,447 bp
Tssr131624	Chr15:74957572-74957576 (+)	2,523 bp
Tssr131625	Chr15:74957745-74957756 (+)	2,700 bp
Tssr131626	Chr15:74957760-74957795 (+)	2,727 bp
Tssr131627	Chr15:74957797-74957822 (+)	2,759 bp
Tssr131628	Chr15:74958186-74958197 (+)	3,141 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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