Lrch3 (leucine rich repeats and calponin homology domain containing 3) - Rat Genome Database

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Gene: Lrch3 (leucine rich repeats and calponin homology domain containing 3) Rattus norvegicus
Analyze
Symbol: Lrch3
Name: leucine rich repeats and calponin homology domain containing 3
RGD ID: 1306200
Description: Predicted to be involved in septin cytoskeleton organization. Predicted to be located in membrane. Predicted to be active in cytosol. Orthologous to human LRCH3 (leucine rich repeats and calponin homology domain containing 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; gentamycin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: DISP complex protein LRCH3; leucine-rich repeat and calponin homology domain-containing protein 3; leucine-rich repeats and calponin homology (CH) domain containing 3; LOC303883
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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
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  (IBA,ISO)
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:29467281  


Genomics

Comparative Map Data
Lrch3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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
(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
(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_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
(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
(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

Variants

.
Variants in Lrch3
328 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:350
Count of miRNA genes:108
Interacting mature miRNAs:117
Transcripts:ENSRNOT00000051989, ENSRNOT00000063883, ENSRNOT00000073865
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)114545932375190161Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116611332182169223Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat

Markers in Region
D11Got58  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,867,112 - 67,867,315 (+)MAPPERmRatBN7.2
Rnor_6.01171,103,077 - 71,103,279NCBIRnor6.0
Rnor_5.01174,187,983 - 74,188,185UniSTSRnor5.0
RGSC_v3.41169,687,021 - 69,687,224RGDRGSC3.4
RGSC_v3.41169,687,022 - 69,687,224UniSTSRGSC3.4
RGSC_v3.11169,744,611 - 69,744,813RGD
Celera1167,310,801 - 67,311,003UniSTS
RH 3.4 Map11387.7UniSTS
RH 3.4 Map11387.7RGD
RH 2.0 Map11258.3RGD
Cytogenetic Map11q22UniSTS
D7Got152  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,867,094 - 67,867,266 (+)MAPPERmRatBN7.2
Rnor_6.01171,103,059 - 71,103,230NCBIRnor6.0
Rnor_5.01174,187,965 - 74,188,136UniSTSRnor5.0
RGSC_v3.41169,687,003 - 69,687,175RGDRGSC3.4
RGSC_v3.41169,687,004 - 69,687,175UniSTSRGSC3.4
RGSC_v3.11169,744,593 - 69,744,764RGD
Celera1167,310,783 - 67,310,954UniSTS
RH 3.4 Map11375.73RGD
RH 3.4 Map11375.73UniSTS
Cytogenetic Map11q22UniSTS
D11Got116  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,839,205 - 67,839,323 (+)MAPPERmRatBN7.2
Rnor_6.01171,075,387 - 71,075,504NCBIRnor6.0
Rnor_5.01174,160,293 - 74,160,410UniSTSRnor5.0
RGSC_v3.41169,659,078 - 69,659,195UniSTSRGSC3.4
Celera1167,283,269 - 67,283,386UniSTS
Cytogenetic Map11q22UniSTS
RH144494  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,842,755 - 67,842,851 (+)MAPPERmRatBN7.2
Rnor_6.01171,078,937 - 71,079,032NCBIRnor6.0
Rnor_5.01174,163,843 - 74,163,938UniSTSRnor5.0
RGSC_v3.41169,662,627 - 69,662,722UniSTSRGSC3.4
Celera1167,286,819 - 67,286,914UniSTS
RH 3.4 Map11381.4UniSTS
Cytogenetic Map11q22UniSTS
RH138611  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,851,030 - 67,851,212 (+)MAPPERmRatBN7.2
Rnor_6.01171,086,999 - 71,087,180NCBIRnor6.0
Rnor_5.01174,171,905 - 74,172,086UniSTSRnor5.0
RGSC_v3.41169,670,944 - 69,671,125UniSTSRGSC3.4
Celera1167,294,758 - 67,294,939UniSTS
RH 3.4 Map11391.8UniSTS
Cytogenetic Map11q22UniSTS
RH138987  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,869,856 - 67,870,010 (+)MAPPERmRatBN7.2
Rnor_6.01171,105,821 - 71,105,974NCBIRnor6.0
Rnor_5.01174,190,727 - 74,190,880UniSTSRnor5.0
RGSC_v3.41169,689,766 - 69,689,919UniSTSRGSC3.4
Celera1167,313,545 - 67,313,698UniSTS
RH 3.4 Map11391.8UniSTS
Cytogenetic Map11q22UniSTS
RH139375  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,878,082 - 67,878,184 (+)MAPPERmRatBN7.2
Rnor_6.01171,114,047 - 71,114,148NCBIRnor6.0
Rnor_5.01174,198,953 - 74,199,054UniSTSRnor5.0
RGSC_v3.41169,697,992 - 69,698,093UniSTSRGSC3.4
Celera1167,321,771 - 67,321,872UniSTS
RH 3.4 Map11393.1UniSTS
Cytogenetic Map11q22UniSTS
RH141328  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,853,405 - 67,853,585 (+)MAPPERmRatBN7.2
Rnor_6.01171,089,374 - 71,089,553NCBIRnor6.0
Rnor_5.01174,174,280 - 74,174,459UniSTSRnor5.0
RGSC_v3.41169,673,319 - 69,673,498UniSTSRGSC3.4
Celera1167,297,133 - 67,297,312UniSTS
RH 3.4 Map11391.9UniSTS
Cytogenetic Map11q22UniSTS
RH141635  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,841,161 - 67,841,366 (+)MAPPERmRatBN7.2
Rnor_6.01171,077,343 - 71,077,547NCBIRnor6.0
Rnor_5.01174,162,249 - 74,162,453UniSTSRnor5.0
RGSC_v3.41169,661,033 - 69,661,237UniSTSRGSC3.4
Celera1167,285,225 - 67,285,429UniSTS
RH 3.4 Map11390.6UniSTS
Cytogenetic Map11q22UniSTS


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 renal system reproductive system respiratory system appendage
High
Medium 3 36 29 13 19 13 8 8 74 34 38 11 8
Low 7 28 28 28 3 1 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001371837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001371838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003751063 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003752499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003752500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003752501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008776718 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598173 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017604362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088329 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088330 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088331 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088335 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BQ205192 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473967 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000051989   ⟹   ENSRNOP00000042417
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1167,774,286 - 67,872,229 (-)Ensembl
Rnor_6.0 Ensembl1171,012,061 - 71,108,184 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000063883   ⟹   ENSRNOP00000063876
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1167,776,498 - 67,872,264 (-)Ensembl
Rnor_6.0 Ensembl1171,012,061 - 71,108,184 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000073865   ⟹   ENSRNOP00000066301
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1167,776,498 - 67,872,264 (-)Ensembl
Rnor_6.0 Ensembl1171,012,061 - 71,108,184 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094874   ⟹   ENSRNOP00000097753
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1167,772,506 - 67,872,220 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096046   ⟹   ENSRNOP00000077497
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1167,772,506 - 67,872,264 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096328   ⟹   ENSRNOP00000092260
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1167,772,506 - 67,872,264 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116720   ⟹   ENSRNOP00000097063
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1167,772,506 - 67,872,264 (-)Ensembl
RefSeq Acc Id: NM_001371837   ⟹   NP_001358766
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,772,500 - 67,872,264 (-)NCBI
RefSeq Acc Id: NM_001371838   ⟹   NP_001358767
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,772,500 - 67,872,264 (-)NCBI
RefSeq Acc Id: XM_039088324   ⟹   XP_038944252
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088325   ⟹   XP_038944253
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088326   ⟹   XP_038944254
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088328   ⟹   XP_038944256
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088329   ⟹   XP_038944257
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088330   ⟹   XP_038944258
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088331   ⟹   XP_038944259
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,778,817 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088332   ⟹   XP_038944260
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088334   ⟹   XP_038944262
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088335   ⟹   XP_038944263
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: XM_039088336   ⟹   XP_038944264
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,772,499 - 67,872,268 (-)NCBI
RefSeq Acc Id: XM_039088337   ⟹   XP_038944265
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,775,908 - 67,872,269 (-)NCBI
RefSeq Acc Id: ENSRNOP00000063876   ⟸   ENSRNOT00000063883
RefSeq Acc Id: ENSRNOP00000042417   ⟸   ENSRNOT00000051989
RefSeq Acc Id: ENSRNOP00000066301   ⟸   ENSRNOT00000073865
RefSeq Acc Id: XP_038944264   ⟸   XM_039088336
- Peptide Label: isoform X13
- UniProtKB: A0A8I6AN41 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001358767   ⟸   NM_001371838
- Peptide Label: 2
- UniProtKB: A0A8I6AH73 (UniProtKB/TrEMBL),   A0A8I6AN41 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001358766   ⟸   NM_001371837
- Peptide Label: 1
- UniProtKB: A0A8I5ZJI0 (UniProtKB/TrEMBL),   A6IRN0 (UniProtKB/TrEMBL),   A6IRM9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944265   ⟸   XM_039088337
- Peptide Label: isoform X14
- UniProtKB: A0A8I6AN41 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944263   ⟸   XM_039088335
- Peptide Label: isoform X12
- UniProtKB: D4A8M4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944262   ⟸   XM_039088334
- Peptide Label: isoform X11
- UniProtKB: D4A8M4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944258   ⟸   XM_039088330
- Peptide Label: isoform X7
- UniProtKB: D3ZWD1 (UniProtKB/TrEMBL),   A6IRM9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944256   ⟸   XM_039088328
- Peptide Label: isoform X5
- UniProtKB: A6IRM9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944253   ⟸   XM_039088325
- Peptide Label: isoform X2
- UniProtKB: A6IRM9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944260   ⟸   XM_039088332
- Peptide Label: isoform X9
- UniProtKB: A0A8I6AN41 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944254   ⟸   XM_039088326
- Peptide Label: isoform X3
- UniProtKB: D4A8M4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944257   ⟸   XM_039088329
- Peptide Label: isoform X6
- UniProtKB: A0A8I6AN41 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944252   ⟸   XM_039088324
- Peptide Label: isoform X1
- UniProtKB: M0R9W9 (UniProtKB/TrEMBL),   A6IRM9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944259   ⟸   XM_039088331
- Peptide Label: isoform X8
- UniProtKB: A6IRM9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000077497   ⟸   ENSRNOT00000096046
RefSeq Acc Id: ENSRNOP00000097753   ⟸   ENSRNOT00000094874
RefSeq Acc Id: ENSRNOP00000092260   ⟸   ENSRNOT00000096328
RefSeq Acc Id: ENSRNOP00000097063   ⟸   ENSRNOT00000116720
Protein Domains
Calponin-homology (CH)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A8M4-F1-model_v2 AlphaFold D4A8M4 1-769 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13698207
Promoter ID:EPDNEW_R8729
Type:multiple initiation site
Name:Lrch3_1
Description:leucine rich repeats and calponin homology domain containing3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01171,108,204 - 71,108,264EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306200 AgrOrtholog
BioCyc Gene G2FUF-21119 BioCyc
Ensembl Genes ENSRNOG00000001774 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051989.7 UniProtKB/TrEMBL
  ENSRNOT00000063883 ENTREZGENE
  ENSRNOT00000063883.3 UniProtKB/TrEMBL
  ENSRNOT00000073865 ENTREZGENE
  ENSRNOT00000073865.4 UniProtKB/TrEMBL
  ENSRNOT00000094874.1 UniProtKB/TrEMBL
  ENSRNOT00000096046 ENTREZGENE
  ENSRNOT00000096046.1 UniProtKB/TrEMBL
  ENSRNOT00000096328 ENTREZGENE
  ENSRNOT00000096328.1 UniProtKB/TrEMBL
  ENSRNOT00000116720 ENTREZGENE
  ENSRNOT00000116720.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.418.10 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
InterPro Calponin-like_dom_sf UniProtKB/TrEMBL
  CH-domain UniProtKB/TrEMBL
  L_dom-like UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
NCBI Gene 303883 ENTREZGENE
PANTHER CALPONIN UniProtKB/TrEMBL
  LEUCINE RICH REPEATS AND CALPONIN HOMOLOGY DOMAIN CONTAINING 3 UniProtKB/TrEMBL
  PTHR48051 UniProtKB/TrEMBL
  TRANSGELIN UniProtKB/TrEMBL
Pfam LRR_8 UniProtKB/TrEMBL
  PF00307 UniProtKB/TrEMBL
PhenoGen Lrch3 PhenoGen
PROSITE PS50021 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001774 RatGTEx
SMART LRR_BAC UniProtKB/TrEMBL
  LRR_TYP UniProtKB/TrEMBL
  SM00033 UniProtKB/TrEMBL
Superfamily-SCOP Calponin-homology UniProtKB/TrEMBL
  L domain-like UniProtKB/TrEMBL
UniProt A0A8I5ZJI0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AH73 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AN41 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6B669_RAT UniProtKB/TrEMBL
  A6IRM9 ENTREZGENE, UniProtKB/TrEMBL
  A6IRN0 ENTREZGENE, UniProtKB/TrEMBL
  D3ZWD1 ENTREZGENE, UniProtKB/TrEMBL
  D4A8M4 ENTREZGENE, UniProtKB/TrEMBL
  M0R9W9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-15 Lrch3  leucine rich repeats and calponin homology domain containing 3  Lrch3  leucine-rich repeats and calponin homology (CH) domain containing 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Lrch3  leucine-rich repeats and calponin homology (CH) domain containing 3   Lrch3_predicted  leucine-rich repeats and calponin homology (CH) domain containing 3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Lrch3_predicted  leucine-rich repeats and calponin homology (CH) domain containing 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED