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) Canis lupus familiaris
Analyze
Symbol: LRRC3
Name: leucine rich repeat containing 3
RGD ID: 12358815
Description: ASSOCIATED WITH autistic disorder (ortholog); autoimmune polyendocrine syndrome type 1 (ortholog); cataract 9 multiple types (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: leucine-rich repeat-containing 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
CanFam3.13138,260,952 - 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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(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

Variants

.
Variants in LRRC3
110 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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 4
Low 4 1 17 6 2 6 6 1 10 6
Below cutoff 1 4 5 6 11 8

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_022413214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038443152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038461907 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038518062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038581625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038646026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038646027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005305169 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005305170 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005316813 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005316814 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005348621 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005348622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005382464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005382465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000031 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000031 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000047607   ⟹   ENSCAFP00000041404
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3138,261,199 - 38,261,972 (+)Ensembl
RefSeq Acc Id: XM_038443152   ⟹   XP_038299080
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03137,808,251 - 37,810,377 (+)NCBI
RefSeq Acc Id: XM_038461907   ⟹   XP_038317835
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha3137,420,414 - 37,422,540 (+)NCBI
RefSeq Acc Id: XM_038518062   ⟹   XP_038373990
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13137,679,257 - 37,681,383 (+)NCBI
RefSeq Acc Id: XM_038581625   ⟹   XP_038437553
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03138,155,114 - 38,157,240 (+)NCBI
RefSeq Acc Id: XM_038646026   ⟹   XP_038501954
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03137,657,734 - 37,661,485 (+)NCBI
RefSeq Acc Id: XM_038646027   ⟹   XP_038501955
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03137,657,734 - 37,661,485 (+)NCBI
RefSeq Acc Id: XR_005305169
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03137,808,251 - 37,812,002 (+)NCBI
RefSeq Acc Id: XR_005305170
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03137,808,251 - 37,812,002 (+)NCBI
RefSeq Acc Id: XR_005316813
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha3137,420,414 - 37,424,165 (+)NCBI
RefSeq Acc Id: XR_005316814
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha3137,420,414 - 37,424,165 (+)NCBI
RefSeq Acc Id: XR_005348621
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13137,679,257 - 37,683,008 (+)NCBI
RefSeq Acc Id: XR_005348622
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13137,679,257 - 37,683,008 (+)NCBI
RefSeq Acc Id: XR_005382464
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03138,155,114 - 38,158,865 (+)NCBI
RefSeq Acc Id: XR_005382465
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03138,155,114 - 38,158,865 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000041404   ⟸   ENSCAFT00000047607
RefSeq Acc Id: XP_038373990   ⟸   XM_038518062
RefSeq Acc Id: XP_038501955   ⟸   XM_038646027
RefSeq Acc Id: XP_038501954   ⟸   XM_038646026
RefSeq Acc Id: XP_038299080   ⟸   XM_038443152
- UniProtKB: A0A8C0R408 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038317835   ⟸   XM_038461907
- UniProtKB: A0A8C0R408 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038437553   ⟸   XM_038581625
- UniProtKB: A0A8C0R408 (UniProtKB/TrEMBL)

Promoters
RGD ID:13688660
Promoter ID:EPDNEW_C6729
Type:multiple initiation site
Name:LRRC3_1
Description:leucine rich repeat 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
CanFam3.13138,261,276 - 38,261,336EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000031315 Ensembl
NCBI Gene LRRC3 ENTREZGENE
UniProt A0A8C0R408 ENTREZGENE
VGNC ID VGNC:53033 ENTREZGENE