Clpsl2 (colipase-like 2) - Rat Genome Database

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Gene: Clpsl2 (colipase-like 2) Rattus norvegicus
Analyze
Symbol: Clpsl2
Name: colipase-like 2
RGD ID: 1592336
Description: Predicted to enable enzyme activator activity. Predicted to be involved in response to food. Predicted to be located in extracellular region. Orthologous to human CLPSL2 (colipase like 2); INTERACTS WITH acrylamide; bisphenol A; 3-methylcholanthrene (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: colipase-like protein 2; hypothetical protein LOC689425; LOC689425; uncharacterized protein LOC689425
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2206,608,128 - 6,610,951 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl206,608,128 - 6,610,951 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx207,321,434 - 7,324,256 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0206,683,269 - 6,686,090 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0207,162,308 - 7,165,123 (+)NCBIRnor_WKY
Rnor_6.0205,791,521 - 5,794,344 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,791,449 - 5,794,344 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,827,068 - 7,829,891 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4206,789,877 - 6,792,700 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera208,164,501 - 8,167,324 (+)NCBICelera
Cytogenetic Map20p12NCBI
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
Clpsl2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2206,608,128 - 6,610,951 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl206,608,128 - 6,610,951 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx207,321,434 - 7,324,256 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0206,683,269 - 6,686,090 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0207,162,308 - 7,165,123 (+)NCBIRnor_WKY
Rnor_6.0205,791,521 - 5,794,344 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,791,449 - 5,794,344 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,827,068 - 7,829,891 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4206,789,877 - 6,792,700 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera208,164,501 - 8,167,324 (+)NCBICelera
Cytogenetic Map20p12NCBI
CLPSL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38635,776,598 - 35,779,552 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl635,776,594 - 35,779,552 (+)EnsemblGRCh38hg38GRCh38
GRCh37635,744,375 - 35,747,329 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36635,852,370 - 35,855,307 (+)NCBINCBI36Build 36hg18NCBI36
Celera637,298,966 - 37,301,904 (+)NCBICelera
Cytogenetic Map6p21.31NCBI
HuRef635,462,114 - 35,465,051 (+)NCBIHuRef
CHM1_1635,746,130 - 35,749,067 (+)NCBICHM1_1
T2T-CHM13v2.0635,596,952 - 35,599,906 (+)NCBIT2T-CHM13v2.0
Clpsl2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391728,768,461 - 28,771,592 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1728,768,385 - 28,771,594 (+)EnsemblGRCm39 Ensembl
GRCm381728,549,487 - 28,552,618 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1728,549,411 - 28,552,620 (+)EnsemblGRCm38mm10GRCm38
MGSCv371728,686,432 - 28,689,563 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361728,277,074 - 28,280,207 (+)NCBIMGSCv36mm8
Celera1729,103,333 - 29,106,807 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
CLPSL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1636,541,051 - 36,543,967 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl636,541,051 - 36,543,953 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0635,338,749 - 35,341,806 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CLPSL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1124,897,181 - 4,899,657 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl124,897,221 - 4,899,544 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha124,911,918 - 4,914,684 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0125,238,541 - 5,241,304 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl125,238,869 - 5,241,192 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1124,894,378 - 4,897,141 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0124,973,469 - 4,976,235 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0125,074,224 - 5,076,886 (+)NCBIUU_Cfam_GSD_1.0
Clpsl2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494640,433,895 - 40,436,051 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647623,523,392 - 23,525,667 (-)EnsemblSpeTri2.0
SpeTri2.0NW_00493647623,524,179 - 23,526,280 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLPSL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl731,605,336 - 31,608,102 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1731,605,362 - 31,607,931 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2736,533,227 - 36,535,804 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLPSL2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11736,336,509 - 36,339,731 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1736,336,615 - 36,339,416 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604435,703,880 - 35,707,907 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Clpsl2
11 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:80
Count of miRNA genes:71
Interacting mature miRNAs:71
Transcripts:ENSRNOT00000059292
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
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2046066076691706Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat


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 endocrine system exocrine system hemolymphoid system hepatobiliary system renal system reproductive system respiratory system
High
Medium
Low 9
Below cutoff 2 2 2 2 2 6 15 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001135002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACYVU010000324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000059292   ⟹   ENSRNOP00000056057
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl206,608,128 - 6,610,951 (+)Ensembl
Rnor_6.0 Ensembl205,791,521 - 5,794,344 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092287   ⟹   ENSRNOP00000075820
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,792,380 - 5,794,295 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092389   ⟹   ENSRNOP00000075842
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,791,449 - 5,791,610 (+)Ensembl
RefSeq Acc Id: NM_001135002   ⟹   NP_001128474
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2206,608,128 - 6,610,951 (+)NCBI
Rnor_6.0205,791,521 - 5,794,344 (+)NCBI
Rnor_5.0207,827,068 - 7,829,891 (+)NCBI
RGSC_v3.4206,789,877 - 6,792,700 (+)RGD
Celera208,164,501 - 8,167,324 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001128474 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein D3ZVN1 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001128474   ⟸   NM_001135002
- Peptide Label: precursor
- UniProtKB: D3ZVN1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000075820   ⟸   ENSRNOT00000092287
RefSeq Acc Id: ENSRNOP00000075842   ⟸   ENSRNOT00000092389
RefSeq Acc Id: ENSRNOP00000056057   ⟸   ENSRNOT00000059292

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZVN1-F1-model_v2 AlphaFold D3ZVN1 1-104 view protein structure

Transcriptome

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

Promoters
RGD ID:13701429
Promoter ID:EPDNEW_R11952
Type:single initiation site
Name:Clpsl2_1
Description:colipase-like 2
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_6.0205,791,535 - 5,791,595EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1592336 AgrOrtholog
BioCyc Gene G2FUF-4417 BioCyc
Ensembl Genes ENSRNOG00000038807 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000056057 ENTREZGENE
  ENSRNOP00000056057.2 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000059292 ENTREZGENE
  ENSRNOT00000059292.3 UniProtKB/Swiss-Prot
Gene3D-CATH Lipase, subunit A UniProtKB/Swiss-Prot
InterPro Colipase UniProtKB/Swiss-Prot
KEGG Report rno:689425 UniProtKB/Swiss-Prot
NCBI Gene 689425 ENTREZGENE
PANTHER COLIPASE-LIKE PROTEIN 2 UniProtKB/Swiss-Prot
  PTHR10041 UniProtKB/Swiss-Prot
PhenoGen Clpsl2 PhenoGen
PROSITE COLIPASE_2 UniProtKB/Swiss-Prot
UniProt COLL2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-02 Clpsl2  colipase-like 2  LOC689425  hypothetical protein LOC689425  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC689425  hypothetical protein LOC689425      Symbol and Name status set to provisional 70820 PROVISIONAL