Human Gene PRRC2C (ENST00000647382.2_6) from GENCODE V47lift37
  Description: proline rich coiled-coil 2C, transcript variant 2 (from RefSeq NM_001387844.1)
Gencode Transcript: ENST00000647382.2_6
Gencode Gene: ENSG00000117523.18_17
Transcript (Including UTRs)
   Position: hg19 chr1:171,454,669-171,562,650 Size: 107,982 Total Exon Count: 35 Strand: +
Coding Region
   Position: hg19 chr1:171,481,228-171,560,986 Size: 79,759 Coding Exon Count: 34 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:171,454,669-171,562,650)mRNA (may differ from genome)Protein (2898 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsHGNC
MGIPubMedUniProtKB

-  Comments and Description Text from UniProtKB
  ID: PRC2C_HUMAN
DESCRIPTION: RecName: Full=Protein PRRC2C; AltName: Full=BAT2 domain-containing protein 1; AltName: Full=HBV X-transactivated gene 2 protein; AltName: Full=HBV XAg-transactivated protein 2; AltName: Full=HLA-B-associated transcript 2-like 2; AltName: Full=Proline-rich and coiled-coil-containing protein 2C;
TISSUE SPECIFICITY: Overexpressed in bladder cancer.
SEQUENCE CAUTION: Sequence=AAH06090.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=AAH45713.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=AAH58930.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=BAA90997.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;

-  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

+  Common Gene Haplotype Alleles
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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -86.20263-0.328 Picture PostScript Text
3' UTR -427.101664-0.257 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
IPR009738 - BAT2_N

Pfam Domains:
PF07001 - BAT2 N-terminus

ModBase Predicted Comparative 3D Structure on Q9Y520
FrontTopSide
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0008022 protein C-terminus binding

Biological Process:
GO:0002244 hematopoietic progenitor cell differentiation

Cellular Component:
GO:0005829 cytosol
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  BC066968 - Homo sapiens BAT2 domain containing 1, mRNA (cDNA clone IMAGE:5260574).
BC058930 - Homo sapiens BAT2 domain containing 1, mRNA (cDNA clone IMAGE:4998749), partial cds.
BC026108 - Homo sapiens BAT2 domain containing 1, mRNA (cDNA clone IMAGE:4794617).
BC045713 - Homo sapiens BAT2 domain containing 1, mRNA (cDNA clone IMAGE:4794601), complete cds.
BC001260 - Homo sapiens BAT2 domain containing 1, mRNA (cDNA clone IMAGE:3460804).
BC006090 - Homo sapiens BAT2 domain containing 1, mRNA (cDNA clone IMAGE:3926279), partial cds.
AK095231 - Homo sapiens cDNA FLJ37912 fis, clone CTONG1000056.
AF253978 - Homo sapiens BAT2-iso mRNA, partial cds.
AL096857 - Novel human mRNA from chromosome 1, which has similarities to BAT2 genes.
JD282731 - Sequence 263755 from Patent EP1572962.
AF488829 - Homo sapiens HBxAg transactivated protein 2 (XTP2) mRNA, complete cds.
AK298887 - Homo sapiens cDNA FLJ50056 partial cds, highly similar to Homo sapiens BAT2 domain containing 1 (BAT2D1), mRNA.
AK297263 - Homo sapiens cDNA FLJ54637 partial cds, highly similar to Homo sapiens BAT2 domain containing 1 (BAT2D1), mRNA.
AB029019 - Homo sapiens mRNA for KIAA1096 protein, partial cds.
AL162004 - Homo sapiens mRNA; cDNA DKFZp434M1616 (from clone DKFZp434M1616).
AK124374 - Homo sapiens cDNA FLJ42383 fis, clone UTERU2036623.
AK000190 - Homo sapiens cDNA FLJ20183 fis, clone COLF0283.
AK304841 - Homo sapiens cDNA FLJ52084 complete cds, highly similar to Homo sapiens BAT2 domain containing 1 (BAT2D1), mRNA.
AK022492 - Homo sapiens cDNA FLJ12430 fis, clone MAMMA1003150, weakly similar to HYPOTHETICAL 118.4 KD PROTEIN IN BAT2-DAL5 INTERGENIC REGION PRECURSOR.
AL133635 - Homo sapiens mRNA; cDNA DKFZp434H2018 (from clone DKFZp434H2018).
LF369348 - JP 2014500723-A/176851: Polycomb-Associated Non-Coding RNAs.
LF369347 - JP 2014500723-A/176850: Polycomb-Associated Non-Coding RNAs.
LF369346 - JP 2014500723-A/176849: Polycomb-Associated Non-Coding RNAs.
LF369345 - JP 2014500723-A/176848: Polycomb-Associated Non-Coding RNAs.
LF369344 - JP 2014500723-A/176847: Polycomb-Associated Non-Coding RNAs.
JD062412 - Sequence 43436 from Patent EP1572962.
JD109777 - Sequence 90801 from Patent EP1572962.
JD103721 - Sequence 84745 from Patent EP1572962.
LF369343 - JP 2014500723-A/176846: Polycomb-Associated Non-Coding RNAs.
JD133591 - Sequence 114615 from Patent EP1572962.
JD435877 - Sequence 416901 from Patent EP1572962.
JD042303 - Sequence 23327 from Patent EP1572962.
JD304331 - Sequence 285355 from Patent EP1572962.
JD050494 - Sequence 31518 from Patent EP1572962.
JD354129 - Sequence 335153 from Patent EP1572962.
JD065375 - Sequence 46399 from Patent EP1572962.
JD234407 - Sequence 215431 from Patent EP1572962.
JD454336 - Sequence 435360 from Patent EP1572962.
JD231337 - Sequence 212361 from Patent EP1572962.
MA604925 - JP 2018138019-A/176851: Polycomb-Associated Non-Coding RNAs.
MA604924 - JP 2018138019-A/176850: Polycomb-Associated Non-Coding RNAs.
MA604923 - JP 2018138019-A/176849: Polycomb-Associated Non-Coding RNAs.
MA604922 - JP 2018138019-A/176848: Polycomb-Associated Non-Coding RNAs.
MA604921 - JP 2018138019-A/176847: Polycomb-Associated Non-Coding RNAs.
MA604920 - JP 2018138019-A/176846: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: BAT2D1, BAT2L2, ENST00000647382.1, KIAA1096, NM_001387844, PRC2C_HUMAN, PRRC2C , Q05DM8, Q49A39, Q6PD54, Q9H2N2, Q9HA05, Q9NSM8, Q9NXL3, Q9UF29, Q9UPQ6, Q9Y520, uc328nlb.1, uc328nlb.2, XTP2
UCSC ID: ENST00000647382.2_6
RefSeq Accession: NM_001387844.1
Protein: Q9Y520 (aka PRC2C_HUMAN)

-  Gene Model Information
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-  Methods, Credits, and Use Restrictions
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