LRRC3 (leucine rich repeat containing 3) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: LRRC3 (leucine rich repeat containing 3) Chlorocebus sabaeus
Analyze
Symbol: LRRC3
Name: leucine rich repeat containing 3
RGD ID: 18495233
Description: ASSOCIATED WITH autistic disorder (ortholog); autoimmune polyendocrine syndrome type 1 (ortholog); cataract 9 multiple types (ortholog); FOUND IN extracellular matrix (inferred); extracellular space (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: leucine-rich repeat-containing protein 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1288,176,282 - 88,179,587 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl288,177,399 - 88,178,172 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605416,298,872 - 16,302,202 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
LRRC3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1288,176,282 - 88,179,587 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl288,177,399 - 88,178,172 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605416,298,872 - 16,302,202 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LRRC3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382144,455,510 - 44,462,196 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2144,455,510 - 44,462,196 (+)EnsemblGRCh38hg38GRCh38
GRCh372145,875,393 - 45,882,079 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362144,699,821 - 44,703,167 (+)NCBINCBI36Build 36hg18NCBI36
Build 342144,699,820 - 44,703,165NCBI
Celera2130,983,450 - 30,986,796 (+)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2131,231,265 - 31,252,771 (+)NCBIHuRef
CHM1_12145,436,231 - 45,439,577 (+)NCBICHM1_1
T2T-CHM13v2.02142,815,963 - 42,822,649 (+)NCBIT2T-CHM13v2.0
Lrrc3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391077,733,409 - 77,738,370 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1077,733,409 - 77,738,370 (-)EnsemblGRCm39 Ensembl
GRCm381077,897,575 - 77,902,536 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1077,897,575 - 77,902,536 (-)EnsemblGRCm38mm10GRCm38
MGSCv371077,360,320 - 77,365,281 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361077,302,976 - 77,305,639 (-)NCBIMGSCv36mm8
Celera1078,943,394 - 78,948,355 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Lrrc3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82010,758,399 - 10,763,358 (+)NCBIGRCr8
mRatBN7.22010,758,919 - 10,763,736 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2010,758,955 - 10,762,067 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2011,459,293 - 11,460,243 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02010,820,253 - 10,821,203 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02011,291,997 - 11,292,947 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02011,488,514 - 11,491,354 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2011,489,456 - 11,490,406 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02013,658,560 - 13,661,248 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42011,107,145 - 11,108,095 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12011,107,371 - 11,108,322 (+)NCBI
Celera2012,265,471 - 12,266,421 (+)NCBICelera
Cytogenetic Map20p12NCBI
Lrrc3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540741,052,184 - 41,092,196 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540741,053,671 - 41,056,103 (-)NCBIChiLan1.0ChiLan1.0
LRRC3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22240,498,395 - 40,505,251 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12135,370,314 - 35,377,160 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02130,747,366 - 30,755,362 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12144,046,853 - 44,052,759 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2144,047,140 - 44,047,913 (+)Ensemblpanpan1.1panPan2
LRRC3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13138,260,952 - 38,265,951 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3138,261,199 - 38,261,972 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3137,420,414 - 37,424,165 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03137,808,251 - 37,812,002 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.13137,679,257 - 37,683,008 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03137,657,734 - 37,661,485 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03138,155,114 - 38,158,865 (+)NCBIUU_Cfam_GSD_1.0
Lrrc3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497137,456,709 - 37,459,133 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365009,644 - 10,417 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365008,707 - 11,116 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRC3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13207,271,416 - 207,272,189 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113207,270,099 - 207,275,901 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213217,175,212 - 217,181,002 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Lrrc3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474529,750,232 - 29,751,005 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474529,749,317 - 29,751,477 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium
Low 35 14 44
Below cutoff 1 4 16

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007969910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000018258   ⟹   ENSCSAP00000017719
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl288,177,399 - 88,178,172 (+)Ensembl
RefSeq Acc Id: XM_007969910   ⟹   XP_007968101
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1288,176,282 - 88,179,587 (+)NCBI
Vero_WHO_p1.0NW_02366605416,298,872 - 16,302,202 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007968101 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000017719.1
Reference Protein Sequences
RefSeq Acc Id: XP_007968101   ⟸   XM_007969910
- UniProtKB: A0A0D9SA30 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000017719   ⟸   ENSCSAT00000018258


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000000277 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000018258.1 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
KEGG Report csab:103219826 UniProtKB/TrEMBL
NCBI Gene LRRC3 ENTREZGENE
PANTHER SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN UniProtKB/TrEMBL
  VASORIN UniProtKB/TrEMBL
Pfam LRR_1 UniProtKB/TrEMBL
  LRR_8 UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
PROSITE LRR UniProtKB/TrEMBL
SMART LRR_TYP UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
UniProt A0A0D9SA30 ENTREZGENE, UniProtKB/TrEMBL