LRCH3 (leucine rich repeats and calponin homology domain 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
Advanced Search (OLGA)
Gene: LRCH3 (leucine rich repeats and calponin homology domain containing 3) Chlorocebus sabaeus
Analyze
Symbol: LRCH3
Name: leucine rich repeats and calponin homology domain containing 3
RGD ID: 18344561
Description: INVOLVED IN septin cytoskeleton organization (inferred); ASSOCIATED WITH Diamond-Blackfan anemia 5 (ortholog); FOUND IN cytosol (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DISP complex protein LRCH3; leucine-rich repeat and calponin homology domain-containing protein 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11591,505,534 - 91,602,261 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1591,505,483 - 91,601,769 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604165,451,355 - 65,566,900 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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

Biological Process

Cellular Component
cytosol  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
LRCH3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11591,505,534 - 91,602,261 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1591,505,483 - 91,601,769 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604165,451,355 - 65,566,900 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LRCH3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383197,791,226 - 197,888,436 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3197,791,226 - 197,888,436 (+)EnsemblGRCh38hg38GRCh38
GRCh373197,518,097 - 197,615,307 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363199,002,542 - 199,082,853 (+)NCBINCBI36Build 36hg18NCBI36
Build 343199,006,454 - 199,086,766NCBI
Celera3196,134,228 - 196,214,562 (+)NCBICelera
Cytogenetic Map3q29NCBI
HuRef3194,820,951 - 194,901,170 (+)NCBIHuRef
CHM1_13197,489,047 - 197,569,496 (+)NCBICHM1_1
T2T-CHM13v2.03200,523,608 - 200,620,895 (+)NCBIT2T-CHM13v2.0
Lrch3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391632,734,452 - 32,836,399 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1632,734,470 - 32,836,017 (+)EnsemblGRCm39 Ensembl
GRCm381632,914,083 - 33,016,029 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1632,914,100 - 33,015,647 (+)EnsemblGRCm38mm10GRCm38
MGSCv371632,914,186 - 33,016,115 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361632,833,847 - 32,935,776 (+)NCBIMGSCv36mm8
Celera1633,393,372 - 33,496,032 (+)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1623.46NCBI
Lrch3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81181,277,581 - 81,377,339 (-)NCBIGRCr8
mRatBN7.21167,772,499 - 67,872,269 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1167,772,506 - 67,872,264 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1176,609,569 - 76,709,339 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01169,271,364 - 69,371,135 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01168,298,660 - 68,398,437 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01171,008,950 - 71,108,229 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1171,012,061 - 71,108,184 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01174,093,857 - 74,193,105 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41169,619,236 - 69,692,162 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11169,653,072 - 69,749,723 (-)NCBI
Celera1167,216,909 - 67,315,953 (-)NCBICelera
Cytogenetic Map11q22NCBI
Lrch3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542012,001,120 - 12,086,799 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542011,998,567 - 12,086,872 (-)NCBIChiLan1.0ChiLan1.0
LRCH3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22195,700,958 - 195,808,735 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13195,707,603 - 195,835,180 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03195,208,347 - 195,311,200 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13205,090,246 - 205,177,047 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3205,090,281 - 205,189,348 (+)Ensemblpanpan1.1panPan2
LRCH3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13328,792,654 - 28,913,521 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3328,795,134 - 28,913,489 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3328,808,716 - 28,934,868 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03329,025,233 - 29,144,674 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3329,026,379 - 29,145,027 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13328,815,306 - 28,941,358 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03328,861,458 - 28,987,467 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03329,481,393 - 29,607,518 (-)NCBIUU_Cfam_GSD_1.0
Lrch3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602125,542,833 - 125,667,228 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936784221,305 - 341,327 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936784218,041 - 343,400 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRCH3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13134,406,080 - 134,539,326 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113134,406,077 - 134,539,363 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213144,000,039 - 144,133,962 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Lrch3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473060,903,662 - 61,001,317 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473060,901,022 - 61,011,749 (-)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 36 7 59
Low 13 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_008009713 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009714 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009718 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009720 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008009722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003169 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003170 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC239267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACDXN010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSCSAT00000006512   ⟹   ENSCSAP00000004714
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1591,505,483 - 91,601,769 (+)Ensembl
RefSeq Acc Id: XM_008009714   ⟹   XP_008007905
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11591,505,547 - 91,600,342 (+)NCBI
Vero_WHO_p1.0NW_02366604165,451,355 - 65,548,873 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008009718   ⟹   XP_008007909
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11591,505,558 - 91,602,261 (+)NCBI
Vero_WHO_p1.0NW_02366604165,451,357 - 65,553,565 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008009722   ⟹   XP_008007913
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11591,505,561 - 91,602,224 (+)NCBI
Vero_WHO_p1.0NW_02366604165,451,357 - 65,553,565 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038003163   ⟹   XP_037859091
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604165,451,356 - 65,548,873 (+)NCBI
RefSeq Acc Id: XM_038003164   ⟹   XP_037859092
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604165,451,356 - 65,549,271 (+)NCBI
RefSeq Acc Id: XM_038003165   ⟹   XP_037859093
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604165,451,356 - 65,548,873 (+)NCBI
RefSeq Acc Id: XM_038003166   ⟹   XP_037859094
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604165,451,357 - 65,548,873 (+)NCBI
RefSeq Acc Id: XM_038003167   ⟹   XP_037859095
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604165,451,357 - 65,566,900 (+)NCBI
RefSeq Acc Id: XM_038003168   ⟹   XP_037859096
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604165,451,357 - 65,548,873 (+)NCBI
RefSeq Acc Id: XM_038003169   ⟹   XP_037859097
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604165,458,676 - 65,548,873 (+)NCBI
RefSeq Acc Id: XM_038003170   ⟹   XP_037859098
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604165,451,358 - 65,526,722 (+)NCBI
RefSeq Acc Id: XP_008007905   ⟸   XM_008009714
- Peptide Label: isoform X1
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_008007909   ⟸   XM_008009718
- Peptide Label: isoform X5
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_008007913   ⟸   XM_008009722
- Peptide Label: isoform X7
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCSAP00000004714   ⟸   ENSCSAT00000006512
RefSeq Acc Id: XP_037859092   ⟸   XM_038003164
- Peptide Label: isoform X3
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859093   ⟸   XM_038003165
- Peptide Label: isoform X4
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859091   ⟸   XM_038003163
- Peptide Label: isoform X2
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859095   ⟸   XM_038003167
- Peptide Label: isoform X8
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859094   ⟸   XM_038003166
- Peptide Label: isoform X6
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859096   ⟸   XM_038003168
- Peptide Label: isoform X9
- UniProtKB: A0A0D9R7X5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859098   ⟸   XM_038003170
- Peptide Label: isoform X11
RefSeq Acc Id: XP_037859097   ⟸   XM_038003169
- Peptide Label: isoform X10


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000008457 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000006512.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.418.10 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
InterPro CH-domain UniProtKB/TrEMBL
  CH_dom_sf UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  LRR_domain-containing UniProtKB/TrEMBL
NCBI Gene LRCH3 ENTREZGENE
PANTHER LEUCINE RICH REPEATS AND CALPONIN HOMOLOGY DOMAIN CONTAINING 3 UniProtKB/TrEMBL
  PTHR48051 UniProtKB/TrEMBL
Pfam LRR_8 UniProtKB/TrEMBL
  PF00307 UniProtKB/TrEMBL
PROSITE PS50021 UniProtKB/TrEMBL
SMART LRR_BAC UniProtKB/TrEMBL
  LRR_TYP UniProtKB/TrEMBL
  SM00033 UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
  SSF47576 UniProtKB/TrEMBL
UniProt A0A0D9R7X5 ENTREZGENE, UniProtKB/TrEMBL