Lrch1 (leucine rich repeats and calponin homology domain containing 1) - Rat Genome Database

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Gene: Lrch1 (leucine rich repeats and calponin homology domain containing 1) Rattus norvegicus
Analyze
Symbol: Lrch1
Name: leucine rich repeats and calponin homology domain containing 1
RGD ID: 1595678
Description: Predicted to be involved in cellular response to chemokine and negative regulation of T cell migration. Predicted to be located in membrane. Predicted to be active in cytoplasm. Orthologous to human LRCH1 (leucine rich repeats and calponin homology domain containing 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; alpha-Zearalanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: leucine-rich repeat and calponin homology domain-containing protein 1; leucine-rich repeats and calponin homology (CH) domain containing 1; LOC502020; similar to Leucine-rich repeats and calponin homology domain-containing protein 1 (Calponin homology domain-containing protein 1)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81556,469,403 - 56,659,201 (-)NCBIGRCr8
mRatBN7.21550,070,605 - 50,249,724 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1550,071,947 - 50,249,657 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1554,222,543 - 54,400,257 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01555,334,112 - 55,518,558 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01552,173,550 - 52,351,346 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01556,778,738 - 56,970,439 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1556,785,162 - 56,970,365 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01560,506,225 - 60,691,636 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41555,585,038 - 55,788,456 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1549,704,864 - 49,882,665 (-)NCBICelera
Cytogenetic Map15q11NCBI
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
cytoplasm  (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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:28028151   PMID:32631435  


Genomics

Comparative Map Data
Lrch1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81556,469,403 - 56,659,201 (-)NCBIGRCr8
mRatBN7.21550,070,605 - 50,249,724 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1550,071,947 - 50,249,657 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1554,222,543 - 54,400,257 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01555,334,112 - 55,518,558 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01552,173,550 - 52,351,346 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01556,778,738 - 56,970,439 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1556,785,162 - 56,970,365 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01560,506,225 - 60,691,636 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41555,585,038 - 55,788,456 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1549,704,864 - 49,882,665 (-)NCBICelera
Cytogenetic Map15q11NCBI
LRCH1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381346,553,170 - 46,753,041 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1346,553,168 - 46,753,040 (+)EnsemblGRCh38hg38GRCh38
GRCh371347,127,305 - 47,327,176 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361346,025,304 - 46,215,731 (+)NCBINCBI36Build 36hg18NCBI36
Build 341346,025,303 - 46,215,731NCBI
Celera1328,183,132 - 28,383,118 (+)NCBICelera
Cytogenetic Map13q14.13-q14.2NCBI
HuRef1327,920,806 - 28,120,759 (+)NCBIHuRef
CHM1_11347,094,831 - 47,294,960 (+)NCBICHM1_1
T2T-CHM13v2.01345,774,368 - 45,974,291 (+)NCBIT2T-CHM13v2.0
Lrch1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391474,992,113 - 75,185,447 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1474,992,115 - 75,185,316 (-)EnsemblGRCm39 Ensembl
GRCm381474,754,673 - 74,948,007 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1474,754,675 - 74,947,876 (-)EnsemblGRCm38mm10GRCm38
MGSCv371475,154,480 - 75,347,684 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361473,488,572 - 73,682,163 (-)NCBIMGSCv36mm8
Celera1472,262,033 - 72,448,041 (-)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1439.39NCBI
Lrch1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955431404,708 - 498,470 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955431404,575 - 501,268 (+)NCBIChiLan1.0ChiLan1.0
LRCH1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21447,993,450 - 48,197,337 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11346,644,563 - 46,848,369 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01327,697,684 - 27,897,762 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11346,415,745 - 46,615,469 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1346,416,017 - 46,613,065 (+)Ensemblpanpan1.1panPan2
LRCH1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1224,576,658 - 4,687,621 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl224,578,733 - 4,771,753 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha224,621,183 - 4,833,490 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0224,689,020 - 4,771,953 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl224,691,433 - 4,897,648 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1224,473,616 - 4,679,687 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0224,537,280 - 4,743,239 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0224,541,864 - 4,747,977 (-)NCBIUU_Cfam_GSD_1.0
Lrch1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945156,609,736 - 156,796,142 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493656593,779 - 277,777 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493656593,791 - 280,192 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRCH1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1120,688,596 - 20,906,608 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11120,687,657 - 20,906,743 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21121,028,825 - 21,143,457 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LRCH1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1324,545,641 - 24,748,992 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605719,248,894 - 19,451,885 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrch1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247488,305,147 - 8,480,025 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247488,294,112 - 8,479,933 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lrch1
1127 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:109
Count of miRNA genes:81
Interacting mature miRNAs:97
Transcripts:ENSRNOT00000047192
Prediction methods: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
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat

Markers in Region
D15Rat46  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,209,257 - 50,209,472 (+)MAPPERmRatBN7.2
Rnor_6.01556,929,803 - 56,930,017NCBIRnor6.0
Rnor_5.01560,651,035 - 60,651,249UniSTSRnor5.0
RGSC_v3.41555,722,367 - 55,722,582RGDRGSC3.4
RGSC_v3.41555,722,368 - 55,722,582UniSTSRGSC3.4
RGSC_v3.11555,738,147 - 55,738,362RGD
Celera1549,842,267 - 49,842,481UniSTS
SHRSP x BN Map1534.6299RGD
SHRSP x BN Map1534.6299UniSTS
Cytogenetic Map15q11UniSTS
RH132838  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,078,040 - 50,078,258 (+)MAPPERmRatBN7.2
Rnor_6.01556,791,255 - 56,791,472NCBIRnor6.0
Rnor_5.01560,513,660 - 60,513,877UniSTSRnor5.0
RGSC_v3.41555,591,133 - 55,591,350UniSTSRGSC3.4
Celera1549,710,959 - 49,711,176UniSTS
Cytogenetic Map15q11UniSTS
RH130207  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,072,058 - 50,072,243 (+)MAPPERmRatBN7.2
Rnor_6.01556,785,274 - 56,785,458NCBIRnor6.0
Rnor_5.01560,507,679 - 60,507,863UniSTSRnor5.0
RGSC_v3.41555,585,152 - 55,585,336UniSTSRGSC3.4
Celera1549,704,978 - 49,705,162UniSTS
Cytogenetic Map15q11UniSTS
RH137621  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,079,480 - 50,079,639 (+)MAPPERmRatBN7.2
Rnor_6.01556,792,695 - 56,792,853NCBIRnor6.0
Rnor_5.01560,515,100 - 60,515,258UniSTSRnor5.0
RGSC_v3.41555,592,573 - 55,592,731UniSTSRGSC3.4
Celera1549,712,399 - 49,712,557UniSTS
Cytogenetic Map15q11UniSTS
BF390346  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,079,992 - 50,080,158 (+)MAPPERmRatBN7.2
Rnor_6.01556,793,207 - 56,793,372NCBIRnor6.0
Rnor_5.01560,515,612 - 60,515,777UniSTSRnor5.0
RGSC_v3.41555,593,085 - 55,593,250UniSTSRGSC3.4
Celera1549,712,911 - 49,713,076UniSTS
Cytogenetic Map15q11UniSTS
D10Bir6  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,170,858 - 50,170,974 (+)MAPPERmRatBN7.2
Rnor_6.01556,891,420 - 56,891,535NCBIRnor6.0
Rnor_5.01560,613,475 - 60,613,590UniSTSRnor5.0
RGSC_v3.41555,683,934 - 55,684,049UniSTSRGSC3.4
RGSC_v3.42253,107,044 - 253,108,439UniSTSRGSC3.4
Celera1549,803,842 - 49,803,957UniSTS
Cytogenetic Map15q11UniSTS


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 2 16 19 35 17 32 11
Low 1 43 41 41 41 8 11 39 18 9 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000047192   ⟹   ENSRNOP00000047801
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1550,071,947 - 50,249,657 (-)Ensembl
Rnor_6.0 Ensembl1556,785,162 - 56,970,365 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097640   ⟹   ENSRNOP00000076612
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1550,071,947 - 50,249,657 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108157   ⟹   ENSRNOP00000089380
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1550,080,927 - 50,249,657 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108815   ⟹   ENSRNOP00000090771
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1550,071,947 - 50,249,657 (-)Ensembl
RefSeq Acc Id: NM_001134727   ⟹   NP_001128199
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,481,393 - 56,659,100 (-)NCBI
mRatBN7.21550,071,945 - 50,249,657 (-)NCBI
Rnor_6.01556,785,160 - 56,970,365 (-)NCBI
Rnor_5.01560,506,225 - 60,691,636 (-)NCBI
RGSC_v3.41555,585,038 - 55,788,456 (-)RGD
Celera1549,704,864 - 49,882,665 (-)RGD
Sequence:
RefSeq Acc Id: XM_006252311   ⟹   XP_006252373
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,482,902 - 56,659,195 (-)NCBI
mRatBN7.21550,077,975 - 50,249,723 (-)NCBI
Rnor_6.01556,792,653 - 56,970,437 (-)NCBI
Rnor_5.01560,506,225 - 60,691,636 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006252312   ⟹   XP_006252374
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,480,053 - 56,659,177 (-)NCBI
mRatBN7.21550,070,605 - 50,249,721 (-)NCBI
Rnor_6.01556,783,820 - 56,970,433 (-)NCBI
Rnor_5.01560,506,225 - 60,691,636 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006252313   ⟹   XP_006252375
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,482,902 - 56,659,178 (-)NCBI
mRatBN7.21550,077,975 - 50,249,722 (-)NCBI
Rnor_6.01556,792,653 - 56,970,435 (-)NCBI
Rnor_5.01560,506,225 - 60,691,636 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006252315   ⟹   XP_006252377
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,480,053 - 56,659,177 (-)NCBI
mRatBN7.21550,070,605 - 50,249,721 (-)NCBI
Rnor_6.01556,783,820 - 56,970,433 (-)NCBI
Rnor_5.01560,506,225 - 60,691,636 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770896   ⟹   XP_008769118
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,482,902 - 56,659,201 (-)NCBI
mRatBN7.21550,077,975 - 50,249,724 (-)NCBI
Rnor_6.01556,792,653 - 56,970,439 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599784   ⟹   XP_017455273
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,496,541 - 56,659,186 (-)NCBI
mRatBN7.21550,081,569 - 50,249,723 (-)NCBI
Rnor_6.01556,796,024 - 56,970,436 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039093606   ⟹   XP_038949534
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,482,902 - 56,574,620 (-)NCBI
mRatBN7.21550,077,975 - 50,165,161 (-)NCBI
RefSeq Acc Id: XM_063274584   ⟹   XP_063130654
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,496,541 - 56,659,176 (-)NCBI
RefSeq Acc Id: XM_063274585   ⟹   XP_063130655
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,469,403 - 56,659,176 (-)NCBI
RefSeq Acc Id: XM_063274586   ⟹   XP_063130656
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81556,482,902 - 56,628,139 (-)NCBI
RefSeq Acc Id: NP_001128199   ⟸   NM_001134727
- UniProtKB: B2GV98 (UniProtKB/TrEMBL),   A6HTS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252374   ⟸   XM_006252312
- Peptide Label: isoform X3
- UniProtKB: A0A8I6AAA9 (UniProtKB/TrEMBL),   A6HTS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252377   ⟸   XM_006252315
- Peptide Label: isoform X10
- UniProtKB: A0A8I5Y080 (UniProtKB/TrEMBL),   A6HTS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252373   ⟸   XM_006252311
- Peptide Label: isoform X1
- UniProtKB: A6HTS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252375   ⟸   XM_006252313
- Peptide Label: isoform X5
- UniProtKB: A0A8I6ABL3 (UniProtKB/TrEMBL),   A6HTS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769118   ⟸   XM_008770896
- Peptide Label: isoform X2
- UniProtKB: A6HTS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455273   ⟸   XM_017599784
- Peptide Label: isoform X4
- UniProtKB: A6HTS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000047801   ⟸   ENSRNOT00000047192
RefSeq Acc Id: XP_038949534   ⟸   XM_039093606
- Peptide Label: isoform X9
RefSeq Acc Id: ENSRNOP00000076612   ⟸   ENSRNOT00000097640
RefSeq Acc Id: ENSRNOP00000090771   ⟸   ENSRNOT00000108815
RefSeq Acc Id: ENSRNOP00000089380   ⟸   ENSRNOT00000108157
RefSeq Acc Id: XP_063130655   ⟸   XM_063274585
- Peptide Label: isoform X7
- UniProtKB: A6HTS0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063130656   ⟸   XM_063274586
- Peptide Label: isoform X8
- UniProtKB: A6HTS0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063130654   ⟸   XM_063274584
- Peptide Label: isoform X6
- UniProtKB: A6HTS0 (UniProtKB/TrEMBL)
Protein Domains
Calponin-homology (CH)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2GV98-F1-model_v2 AlphaFold B2GV98 1-677 view protein structure

Transcriptome

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

Promoters
RGD ID:13699827
Promoter ID:EPDNEW_R10351
Type:initiation region
Name:Lrch1_1
Description:leucine rich repeats and calponin homology domain containing1
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_6.01556,970,409 - 56,970,469EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1595678 AgrOrtholog
BioCyc Gene G2FUF-13143 BioCyc
Ensembl Genes ENSRNOG00000009412 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047192 ENTREZGENE
  ENSRNOT00000047192.4 UniProtKB/TrEMBL
  ENSRNOT00000097640.1 UniProtKB/TrEMBL
  ENSRNOT00000108157.1 UniProtKB/TrEMBL
  ENSRNOT00000108815.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.418.10 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7444640 IMAGE-MGC_LOAD
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
KEGG Report rno:502020 UniProtKB/TrEMBL
MGC_CLONE MGC:188329 IMAGE-MGC_LOAD
NCBI Gene 502020 ENTREZGENE
PANTHER CALPONIN-HOMOLOGY (CH) DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  PTHR48051 UniProtKB/TrEMBL
Pfam LRR_8 UniProtKB/TrEMBL
  PF00307 UniProtKB/TrEMBL
PhenoGen Lrch1 PhenoGen
PROSITE LRR UniProtKB/TrEMBL
  PS50021 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009412 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 A0A8I5Y080 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AAA9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ABL3 ENTREZGENE, UniProtKB/TrEMBL
  A6HTS0 ENTREZGENE, UniProtKB/TrEMBL
  B2GV98 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-15 Lrch1  leucine rich repeats and calponin homology domain containing 1  Lrch1  leucine-rich repeats and calponin homology (CH) domain containing 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Lrch1  leucine-rich repeats and calponin homology (CH) domain containing 1  LOC502020  similar to Leucine-rich repeats and calponin homology domain-containing protein 1 (Calponin homology domain-containing protein 1)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC502020  similar to Leucine-rich repeats and calponin homology domain-containing protein 1 (Calponin homology domain-containing protein 1)      Symbol and Name status set to provisional 70820 PROVISIONAL