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CLPSL2 Gene

protein-coding   GIFtS: 33
GCID: GC06P037300

Colipase-Like 2

(Previous name: chromosome 6 open reading frame 126)
(Previous symbol: C6orf126)
  Search for CLPSL2
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Colipase-Like 21 2     UNQ30452
C6orf1261 2 3     Colipase-Like Protein 22
Chromosome 6 Open Reading Frame 1261     Colipase-Like Protein C6orf1262
AAAL30452     dJ510O8.52

External Ids:    HGNC: 212501   Entrez Gene: 3893832   Ensembl: ENSG000001967487   UniProtKB: Q6UWE33   
ORGUL members:         

Export aliases for CLPSL2 gene to outside databases

Previous GC identifers: GC06P035745 GC06P035859 GC06P036313


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for CLPSL2 Gene:
CLPSL2 (colipase-like 2) is a protein-coding gene. GO annotations related to this gene include enzyme activator activity.


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000006.12  NC_018917.2  NT_007592.16  
Regulatory elements:
   Search for regulatory transcription factor binding sites for CLPSL2
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCLPSL2 promoter sequence
   Search Chromatin IP Primers for CLPSL2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CLPSL2


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 6p21.31   Ensembl cytogenetic band:  6p21.31   HGNC cytogenetic band: 6p21.31

CLPSL2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CLPSL2 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P037300:  view genomic region     (about GC identifiers)

Start:
35,744,371 bp from pter      End:
35,747,329 bp from pter
Size:
2,959 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: COLL2_HUMAN, Q6UWE3 (See protein sequence)
Recommended Name: Colipase-like protein 2 precursor  
Size: 100 amino acids; 10812 Da
Secondary accessions: B0QZ45 Q5T9G3
Alternative splicing: 2 isoforms:  Q6UWE3-1   Q6UWE3-2   (Ref.1 (AAQ89182) sequence is in conflict in position: 79:R->C)

Explore the universe of human proteins at neXtProt for CLPSL2: NX_Q6UWE3

Explore proteomics data for CLPSL2 at MOPED


See CLPSL2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (2 alternative transcripts): 
NP_001273479.1  NP_997292.2  

ENSEMBL proteins: 
 ENSP00000353639   ENSP00000385898  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro protein domain:
 IPR001981 Colipase

Graphical View of Domain Structure for InterPro Entry Q6UWE3

ProtoNet protein and cluster: Q6UWE3

UniProtKB/Swiss-Prot: COLL2_HUMAN, Q6UWE3
Similarity: Belongs to the colipase family


CLPSL2 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0008047enzyme activator activity IEA--
     
CLPSL2 for ontologies           About GeneDecksing


Phenotypes:
     1 GenomeRNAi human phenotype for CLPSL2:
 Decreased Wnt reporter activit 

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
COLL2_HUMAN, Q6UWE3: Secreted (Probable)

Gene Ontology (GO): 1 cellular component term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005576extracellular region IEA--

CLPSL2 for ontologies           About GeneDecksing


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CLPSL2
Interactions:

    Search GeneGlobe Interaction Network for CLPSL2

Gene Ontology (GO): 2 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0007586digestion IEA--
GO:0016042lipid catabolic process IEA--

CLPSL2 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for CLPSL2 (COLL2)



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for CLPSL2 gene (2 alternative transcripts): 
NM_001286550.1  NM_207409.3  

Unigene Cluster for CLPSL2:

Colipase-like 2
Hs.259563  [show with all ESTs]
Unigene Representative Sequence: CD513822
4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000481904 ENST00000360454(uc010jvz.1 uc003olc.1) ENST00000403376
ENST00000467122
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Additional mRNA sequence: AY358823.1 

1 DOTS entry:

DT.101976154 

5 AceView cDNA sequences:

AY358823 NM_207409 AW665167 AA861820 CD513822 

GeneLoc Exon Structure

2 Alternative Splicing Database (ASD) splice patterns (SP) for CLPSL2    About this scheme

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4
SP1:              -                     
SP2:                          -         


ECgene alternative splicing isoforms for CLPSL2

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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CLPSL2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: ATCTGCTTGC
CLPSL2 Expression
About this image


CLPSL2 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 
 Inner Cell Mass (Early Embryonic Tissues)    fully expand to see all 2 entries
         Human embryonic stem cells (family)
CLPSL2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

CLPSL2 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.259563
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In Situ
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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CLPSL2

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of human and mouse.

Orthologs for CLPSL2 gene from Selected species (see all 5)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Clpsl21 , 5 predicted gene 7495
colipase-like 21
70.27(n)1
62.16(a)1
  17 (14.75 cM)5
3287881  NM_001034871.21  NP_001030043.11 
 285494895 


ENSEMBL Gene Tree for CLPSL2 (if available)
TreeFam Gene Tree for CLPSL2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for CLPSL2 (see all 90)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 6 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1490379781,2
--35742446(+) TTCCAC/TGGAGA 1 -- us2k10--------
rs801582311,2
C,F--35742452(+) GGAGAA/C/TCTTGG 1 -- us2k11WA 118
rs1428529531,2
C--35742465(+) TTTTT-/TGAGAC 1 -- us2k10--------
rs121937641,2
C,F--35742556(+) cctccC/Ggagta 1 -- us2k18Minor allele frequency- G:0.27NA CSA WA EA 368
rs1126581481,2
C,F--35742564(+) GTAGCT/CAGGAC 1 -- us2k12Minor allele frequency- C:0.33WA CSA 3
rs346567861,2
C,F--35742752(+) TGTGCC/TATTGC 1 -- us2k19Minor allele frequency- T:0.27NA CSA WA EA 370
rs1131201991,2
C--35742820(+) AAAAAC/AAAAAC 1 -- us2k11Minor allele frequency- A:0.50NA 2
rs1470066791,2
--35742825(+) AAAAA-/CCAAAAA 1 -- us2k10--------
rs1467581411,2
C--35742923(+) GTCTTA/GTAGAT 1 -- us2k10--------
rs121760471,2
C,H--35742944(+) TGGAAG/AAAGGG 1 -- us2k1 trp34Minor allele frequency- A:0.00NS EA 404

HapMap Linkage Disequilibrium report for CLPSL2 (35744371 - 35747329 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for CLPSL2: --
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing CLPSL2
DNA2.0 Custom Variant and Variant Library Synthesis for CLPSL2

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for CLPSL2 gene integrated from 10 sources:
(articles sorted by number of sources associating them with CLPSL2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)1, 2 Zhang Z. and Henzel W.J. (Protein Sci. 2004)
  2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (Genome Res. 2003)
  3. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)2 Mungall A.J.... Beck S. (Nature 2003)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 389383 HGNC: 21250 AceView: UNQ3045 Ensembl:ENSG00000196748 euGenes: HUgn389383
ECgene: CLPSL2 H-InvDB: CLPSL2

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for CLPSL2 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for CLPSL2 gene:
Search GeneIP for patents involving CLPSL2

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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The GeneCards human gene database gene index: 1 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

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