Lrcol1 (leucine rich colipase-like 1) - Rat Genome Database

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Gene: Lrcol1 (leucine rich colipase-like 1) Rattus norvegicus
Analyze
Symbol: Lrcol1
Name: leucine rich colipase-like 1
RGD ID: 2323402
Description: Predicted to enable enzyme activator activity. Predicted to be involved in digestion and lipid catabolic process. Predicted to be located in extracellular region. Orthologous to human LRCOL1 (leucine rich colipase like 1); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Clpsl3; colipase-like protein 3 variant 1; leucine-rich colipase-like protein 1; LOC100363238; rCG21611-like; uncharacterized protein LOC100363238
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
GRCr81251,985,786 - 51,999,282 (-)NCBIGRCr8
mRatBN7.21246,326,049 - 46,339,475 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1246,326,077 - 46,337,953 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1247,501,686 - 47,513,579 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01248,107,350 - 48,119,228 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01247,167,875 - 47,179,753 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01252,384,164 - 52,397,626 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1252,384,192 - 52,396,066 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01254,119,334 - 54,137,755 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41246,471,864 - 46,473,382 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1247,882,482 - 47,894,395 (-)NCBICelera
Cytogenetic Map12q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Lrcol1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81251,985,786 - 51,999,282 (-)NCBIGRCr8
mRatBN7.21246,326,049 - 46,339,475 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1246,326,077 - 46,337,953 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1247,501,686 - 47,513,579 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01248,107,350 - 48,119,228 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01247,167,875 - 47,179,753 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01252,384,164 - 52,397,626 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1252,384,192 - 52,396,066 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01254,119,334 - 54,137,755 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41246,471,864 - 46,473,382 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1247,882,482 - 47,894,395 (-)NCBICelera
Cytogenetic Map12q16NCBI
LRCOL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812132,603,151 - 132,610,582 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12132,603,150 - 132,610,582 (-)EnsemblGRCh38hg38GRCh38
GRCh3712133,179,737 - 133,187,168 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera12132,879,558 - 132,886,785 (-)NCBICelera
Cytogenetic Map12q24.33NCBI
HuRef12129,959,563 - 129,966,842 (-)NCBIHuRef
CHM1_112132,999,342 - 133,006,619 (-)NCBICHM1_1
T2T-CHM13v2.012132,653,401 - 132,660,802 (-)NCBIT2T-CHM13v2.0
Lrcol1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395110,492,373 - 110,503,960 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5110,492,596 - 110,503,960 (+)EnsemblGRCm39 Ensembl
GRCm385110,344,507 - 110,356,094 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5110,344,730 - 110,356,094 (+)EnsemblGRCm38mm10GRCm38
MGSCv375110,783,115 - 110,785,106 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365110,594,398 - 110,596,391 (+)NCBIMGSCv36mm8
Celera5107,478,824 - 107,480,979 (+)NCBICelera
Cytogenetic Map5FNCBI
cM Map553.5NCBI
Lrcol1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955482429,882 - 431,693 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955482429,882 - 431,693 (+)NCBIChiLan1.0ChiLan1.0
LRCOL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210140,713,218 - 140,720,536 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112140,709,735 - 140,717,053 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012129,955,122 - 129,962,424 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112134,676,061 - 134,683,275 (-)NCBIpanpan1.1PanPan1.1panPan2
LRCOL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.126499,830 - 535,188 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl26500,858 - 502,086 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha26541,670 - 576,614 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.026557,763 - 593,413 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.126496,990 - 532,349 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.026585,954 - 621,614 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.026516,795 - 552,366 (+)NCBIUU_Cfam_GSD_1.0
Lrcol1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118122,167,247 - 122,170,184 (+)NCBIHiC_Itri_2
LRCOL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11422,870,914 - 22,875,485 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21424,373,068 - 24,376,191 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LRCOL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111127,947,670 - 127,956,474 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037116,912,142 - 116,922,703 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrcol1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474728,006,241 - 28,008,841 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lrcol1
62 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:193
Count of miRNA genes:130
Interacting mature miRNAs:145
Transcripts:ENSRNOT00000056712
Prediction methods:Microtar, Miranda, Rnahybrid
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
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)121961087046669029Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat
1600386Calcic2Intracellular calcium level QTL 20.001platelet physiology trait (VT:0005464)platelet intracellular calcium level (CMO:0000922)122806443346669029Rat

Markers in Region
RH138549  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21246,319,396 - 46,319,520 (+)MAPPERmRatBN7.2
Rnor_6.01252,377,515 - 52,377,638NCBIRnor6.0
Rnor_5.01254,112,889 - 54,113,012UniSTSRnor5.0
RGSC_v3.41246,464,829 - 46,464,952UniSTSRGSC3.4
Celera1247,875,137 - 47,875,260UniSTS
RH 3.4 Map12804.1UniSTS
Cytogenetic Map12q16UniSTS


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 musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 2 6 12 5 8 25
Below cutoff 1 19 21 17 12 17 1 48 14 16 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000056712   ⟹   ENSRNOP00000053555
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1246,326,077 - 46,337,953 (-)Ensembl
Rnor_6.0 Ensembl1252,384,192 - 52,396,066 (-)Ensembl
RefSeq Acc Id: NM_001270418   ⟹   NP_001257347
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81251,985,814 - 51,997,688 (-)NCBI
mRatBN7.21246,326,077 - 46,337,953 (-)NCBI
Rnor_6.01252,384,192 - 52,396,066 (-)NCBI
Rnor_5.01254,119,334 - 54,137,755 (-)NCBI
Celera1247,882,482 - 47,894,395 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598231   ⟹   XP_017453720
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81251,985,786 - 51,999,282 (-)NCBI
mRatBN7.21246,326,049 - 46,339,475 (-)NCBI
Rnor_6.01252,384,164 - 52,397,625 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001257347 (Get FASTA)   NCBI Sequence Viewer  
  XP_017453720 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AFE85886 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000053555
  ENSRNOP00000053555.2
Reference Protein Sequences
RefSeq Acc Id: NP_001257347   ⟸   NM_001270418
- Peptide Label: precursor
- UniProtKB: D3ZQQ8 (UniProtKB/TrEMBL),   H9C9P2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017453720   ⟸   XM_017598231
- Peptide Label: isoform X1
- UniProtKB: D3ZQQ8 (UniProtKB/TrEMBL),   H9C9P2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000053555   ⟸   ENSRNOT00000056712

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZQQ8-F1-model_v2 AlphaFold D3ZQQ8 1-163 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2323402 AgrOrtholog
BioCyc Gene G2FUF-18807 BioCyc
Ensembl Genes ENSRNOG00000037466 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000056712 ENTREZGENE
  ENSRNOT00000056712.3 UniProtKB/TrEMBL
Gene3D-CATH 4.10.40.50 UniProtKB/TrEMBL
InterPro Colipase UniProtKB/TrEMBL
KEGG Report rno:100363238 UniProtKB/TrEMBL
NCBI Gene 100363238 ENTREZGENE
PANTHER LEUCINE-RICH COLIPASE-LIKE PROTEIN 1 UniProtKB/TrEMBL
  PTHR10041 UniProtKB/TrEMBL
Pfam Colipase-like UniProtKB/TrEMBL
PhenoGen Lrcol1 PhenoGen
PROSITE COLIPASE_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000037466 RatGTEx
UniProt D3ZQQ8 ENTREZGENE, UniProtKB/TrEMBL
  H9C9P2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-09-10 Lrcol1  leucine rich colipase-like 1  LOC100363238  rCG21611-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100363238  rCG21611-like      Symbol and Name status set to provisional 70820 PROVISIONAL