Human Gene CCDC142 (ENST00000290418.4) from GENCODE V44
  Description: Homo sapiens coiled-coil domain containing 142 (CCDC142), transcript variant 2, mRNA. (from RefSeq NM_032779)
Gencode Transcript: ENST00000290418.4
Gencode Gene: ENSG00000135637.14
Transcript (Including UTRs)
   Position: hg38 chr2:74,474,102-74,482,996 Size: 8,895 Total Exon Count: 9 Strand: -
Coding Region
   Position: hg38 chr2:74,474,546-74,482,837 Size: 8,292 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:74,474,102-74,482,996)mRNA (may differ from genome)Protein (743 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CC142_HUMAN
DESCRIPTION: RecName: Full=Coiled-coil domain-containing protein 142;
SEQUENCE CAUTION: Sequence=BAC11474.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 4.70 RPKM in Testis
Total median expression: 115.99 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -57.10159-0.359 Picture PostScript Text
3' UTR -161.50444-0.364 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR026700 - CCDC142

ModBase Predicted Comparative 3D Structure on Q17RM4
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserNo orthologNo orthologGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGI  Ensembl  
Protein Sequence  Protein Sequence  
Alignment  Alignment  

-  Descriptions from all associated GenBank mRNAs
  LF207220 - JP 2014500723-A/14723: Polycomb-Associated Non-Coding RNAs.
MA442797 - JP 2018138019-A/14723: Polycomb-Associated Non-Coding RNAs.
AK075209 - Homo sapiens cDNA FLJ90728 fis, clone PLACE1009735.
LF207221 - JP 2014500723-A/14724: Polycomb-Associated Non-Coding RNAs.
MA442798 - JP 2018138019-A/14724: Polycomb-Associated Non-Coding RNAs.
LF363231 - JP 2014500723-A/170734: Polycomb-Associated Non-Coding RNAs.
MA598808 - JP 2018138019-A/170734: Polycomb-Associated Non-Coding RNAs.
AK027303 - Homo sapiens cDNA FLJ14397 fis, clone HEMBA1003480.
AK075543 - Homo sapiens cDNA PSEC0243 fis, clone NT2RP3000326.
JD371036 - Sequence 352060 from Patent EP1572962.
JD383290 - Sequence 364314 from Patent EP1572962.
JD517064 - Sequence 498088 from Patent EP1572962.
JD085560 - Sequence 66584 from Patent EP1572962.
JD447808 - Sequence 428832 from Patent EP1572962.
JD332084 - Sequence 313108 from Patent EP1572962.
JD175760 - Sequence 156784 from Patent EP1572962.
JD531492 - Sequence 512516 from Patent EP1572962.
JD444827 - Sequence 425851 from Patent EP1572962.
JD488607 - Sequence 469631 from Patent EP1572962.
JD038398 - Sequence 19422 from Patent EP1572962.
JD311059 - Sequence 292083 from Patent EP1572962.
JD538969 - Sequence 519993 from Patent EP1572962.
JD353245 - Sequence 334269 from Patent EP1572962.
JD130709 - Sequence 111733 from Patent EP1572962.
BC117269 - Homo sapiens coiled-coil domain containing 142, mRNA (cDNA clone MGC:150878 IMAGE:40125820), complete cds.
BC143398 - Homo sapiens coiled-coil domain containing 142, mRNA (cDNA clone MGC:176922 IMAGE:9051905), complete cds.
BC143399 - Homo sapiens cDNA clone IMAGE:9051906.
JD339848 - Sequence 320872 from Patent EP1572962.
JD044429 - Sequence 25453 from Patent EP1572962.
HQ258495 - Synthetic construct Homo sapiens clone IMAGE:100072924 coiled-coil domain containing 142 (CCDC142) gene, encodes complete protein.
KJ903471 - Synthetic construct Homo sapiens clone ccsbBroadEn_12865 CCDC142 gene, encodes complete protein.
JD469174 - Sequence 450198 from Patent EP1572962.
JD496287 - Sequence 477311 from Patent EP1572962.
LF212052 - JP 2014500723-A/19555: Polycomb-Associated Non-Coding RNAs.
MA447629 - JP 2018138019-A/19555: Polycomb-Associated Non-Coding RNAs.
DQ598324 - Homo sapiens piRNA piR-36390, complete sequence.
JD214719 - Sequence 195743 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B7ZKV5, CC142_HUMAN, ENST00000290418.1, ENST00000290418.2, ENST00000290418.3, NM_032779, PSEC0243, Q17RM4, Q8NBJ3, Q8NBV2, Q96KA7, uc002slq.1, uc002slq.2, uc002slq.3, uc002slq.4
UCSC ID: ENST00000290418.4
RefSeq Accession: NM_032779
Protein: Q17RM4 (aka CC142_HUMAN)
CCDS: CCDS1945.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.