LINGO3 (leucine rich repeat and Ig domain containing 3) - Rat Genome Database

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Gene: LINGO3 (leucine rich repeat and Ig domain containing 3) Sus scrofa
Analyze
Symbol: LINGO3
Name: leucine rich repeat and Ig domain containing 3
RGD ID: 14100271
Description: ASSOCIATED WITH genetic disease (ortholog); myoepithelioma (ortholog); Neurodevelopmental Disorders (ortholog); FOUND IN extracellular matrix (inferred); extracellular space (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl276,264,071 - 76,280,623 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1276,264,077 - 76,280,627 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2276,825,890 - 76,843,050 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
LINGO3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl276,264,071 - 76,280,623 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1276,264,077 - 76,280,627 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2276,825,890 - 76,843,050 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LINGO3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38192,287,164 - 2,308,154 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl192,287,164 - 2,308,154 (-)EnsemblGRCh38hg38GRCh38
GRCh37192,287,163 - 2,308,153 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36192,240,774 - 2,259,156 (-)NCBINCBI36Build 36hg18NCBI36
Build 34192,240,998 - 2,243,023NCBI
Celera192,223,699 - 2,242,250 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef192,061,655 - 2,063,324 (-)NCBIHuRef
CHM1_1192,289,362 - 2,307,712 (-)NCBICHM1_1
T2T-CHM13v2.0192,260,807 - 2,281,793 (-)NCBIT2T-CHM13v2.0
Lingo3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391080,668,635 - 80,679,873 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1080,668,635 - 80,679,873 (-)EnsemblGRCm39 Ensembl
GRCm381080,832,801 - 80,844,039 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1080,832,801 - 80,844,039 (-)EnsemblGRCm38mm10GRCm38
MGSCv371080,295,546 - 80,306,784 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361080,235,930 - 80,247,159 (-)NCBIMGSCv36mm8
Celera1081,851,599 - 81,862,837 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Lingo3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,519,252 - 9,530,675 (+)NCBIGRCr8
mRatBN7.278,869,025 - 8,878,431 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl78,869,025 - 8,878,431 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx711,753,044 - 11,762,461 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0713,628,548 - 13,637,965 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0711,495,081 - 11,504,496 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0711,737,293 - 11,746,703 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,737,293 - 11,746,703 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0711,905,008 - 11,914,418 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4710,379,660 - 10,389,070 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera77,053,134 - 7,062,544 (+)NCBICelera
Cytogenetic Map7q11NCBI
Lingo3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554955,860,126 - 5,861,939 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554955,850,956 - 5,862,249 (+)NCBIChiLan1.0ChiLan1.0
LINGO3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2206,672,881 - 6,691,244 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1195,902,227 - 5,920,590 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0191,299,345 - 1,317,706 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
LINGO3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12056,755,986 - 56,757,919 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2056,551,520 - 56,555,841 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02057,489,312 - 57,493,633 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2057,479,171 - 57,493,653 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12056,541,372 - 56,545,693 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02057,026,564 - 57,030,880 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02057,226,955 - 57,231,276 (+)NCBIUU_Cfam_GSD_1.0
Lingo3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118216,461,823 - 216,466,729 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365881,369,707 - 1,371,485 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365881,368,048 - 1,372,364 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LINGO3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.162,081,234 - 2,103,094 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl62,082,224 - 2,084,002 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660816,609,756 - 6,628,671 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lingo3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248286,592,957 - 6,609,665 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248286,592,941 - 6,609,698 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LINGO3
243 total Variants

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

nervous system
High
Medium
Low 5
Below cutoff 9

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000014706   ⟹   ENSSSCP00000014309
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl276,264,071 - 76,280,623 (+)Ensembl
RefSeq Acc Id: XM_005654705   ⟹   XP_005654762
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1276,264,077 - 76,280,627 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_005654762   ⟸   XM_005654705
- UniProtKB: F1S8I1 (UniProtKB/TrEMBL),   A0A4X1VUU7 (UniProtKB/TrEMBL),   A0A8D0VDY4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000014309   ⟸   ENSSSCT00000014706
Protein Domains
Ig-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000013462 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015016594 UniProtKB/TrEMBL
  ENSSSCG00025013690 UniProtKB/TrEMBL
  ENSSSCG00030007990 UniProtKB/TrEMBL
  ENSSSCG00035029642 UniProtKB/TrEMBL
  ENSSSCG00040030346 UniProtKB/TrEMBL
  ENSSSCG00045008014 UniProtKB/TrEMBL
  ENSSSCG00050055667 UniProtKB/TrEMBL
  ENSSSCG00055016093 UniProtKB/TrEMBL
  ENSSSCG00065053713 UniProtKB/TrEMBL
  ENSSSCG00070026493 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000014706 ENTREZGENE
  ENSSSCT00000014706.4 UniProtKB/TrEMBL
  ENSSSCT00015021952.1 UniProtKB/TrEMBL
  ENSSSCT00025018179.1 UniProtKB/TrEMBL
  ENSSSCT00030010760.1 UniProtKB/TrEMBL
  ENSSSCT00035039262.1 UniProtKB/TrEMBL
  ENSSSCT00040040777.1 UniProtKB/TrEMBL
  ENSSSCT00045013454.1 UniProtKB/TrEMBL
  ENSSSCT00050075946.1 UniProtKB/TrEMBL
  ENSSSCT00055031690.1 UniProtKB/TrEMBL
  ENSSSCT00065073544.1 UniProtKB/TrEMBL
  ENSSSCT00070053101.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
InterPro Cys-rich_flank_reg_C UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_I-set UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
KEGG Report ssc:100515299 UniProtKB/TrEMBL
NCBI Gene LINGO3 ENTREZGENE
PANTHER LEUCINE-RICH REPEAT AND IMMUNOGLOBULIN-LIKE DOMAIN-CONTAINING NOGO RECEPTOR-INTERACTING PROTEIN 3 UniProtKB/TrEMBL
  SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN UniProtKB/TrEMBL
Pfam I-set UniProtKB/TrEMBL
  LRR_1 UniProtKB/TrEMBL
  LRR_8 UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
  LRR UniProtKB/TrEMBL
SMART IGc2 UniProtKB/TrEMBL
  LRR_TYP UniProtKB/TrEMBL
  LRRCT UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A4X1VUU7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0VDY4 ENTREZGENE, UniProtKB/TrEMBL
  F1S8I1 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:89734 ENTREZGENE