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) Canis lupus familiaris
Analyze
Symbol: LINGO3
Name: leucine rich repeat and Ig domain containing 3
RGD ID: 12328578
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
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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
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
(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
(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
(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
(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
(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
31 total Variants

Expression


Sequence


RefSeq Acc Id: ENSCAFT00845021890   ⟹   ENSCAFP00845017215
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2057,479,171 - 57,493,653 (+)Ensembl
RefSeq Acc Id: XM_038426617   ⟹   XP_038282545
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02057,489,312 - 57,493,633 (+)NCBI
RefSeq Acc Id: XM_038505071   ⟹   XP_038360999
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12056,541,372 - 56,545,693 (+)NCBI
RefSeq Acc Id: XM_038565346   ⟹   XP_038421274
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02057,226,955 - 57,231,276 (+)NCBI
RefSeq Acc Id: XM_038629461   ⟹   XP_038485389
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02057,026,564 - 57,030,880 (+)NCBI
RefSeq Acc Id: XM_849906   ⟹   XP_854999
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12056,755,986 - 56,757,919 (+)NCBI
Dog10K_Boxer_Tasha2056,551,520 - 56,555,841 (+)NCBI
Sequence:
RefSeq Acc Id: XP_854999   ⟸   XM_849906
- UniProtKB: A0A8C0SAZ9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_038360999   ⟸   XM_038505071
RefSeq Acc Id: XP_038485389   ⟸   XM_038629461
RefSeq Acc Id: XP_038282545   ⟸   XM_038426617
- UniProtKB: A0A8C0SAZ9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038421274   ⟸   XM_038565346
- UniProtKB: A0A8C0SAZ9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845017215   ⟸   ENSCAFT00845021890
Protein Domains
Ig-like

Promoters
RGD ID:13687119
Promoter ID:EPDNEW_C5186
Type:initiation region
Name:LINGO3_1
Description:leucine rich repeat and Ig domain containing 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12056,756,075 - 56,756,135EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000055835 UniProtKB/TrEMBL
  ENSCAFG00040011724 UniProtKB/TrEMBL
  ENSCAFG00845012301 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000103949.1 UniProtKB/TrEMBL
  ENSCAFT00040021600.1 UniProtKB/TrEMBL
  ENSCAFT00845021890.1 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 cfa:612172 UniProtKB/TrEMBL
NCBI Gene LINGO3 ENTREZGENE
PANTHER KEKKON 5, ISOFORM A UniProtKB/TrEMBL
  LEUCINE-RICH REPEAT AND IMMUNOGLOBULIN-LIKE DOMAIN-CONTAINING NOGO RECEPTOR-INTERACTING PROTEIN 3 UniProtKB/TrEMBL
  SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN UniProtKB/TrEMBL
  SYNAPTIC ADHESION-LIKE MOLECULE SALM UniProtKB/TrEMBL
Pfam I-set 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 A0A8C0SAZ9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NB21_CANLF UniProtKB/TrEMBL
  A0A8P0TT01_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:42690 ENTREZGENE