Human Gene PCBP3 (ENST00000681687.1_6) from GENCODE V47lift37

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Description: poly(rC) binding protein 3, transcript variant 11 (from RefSeq NR_145492.2)
Gencode Transcript: ENST00000681687.1_6
Gencode Gene: ENSG00000183570.17_18
Transcript (Including UTRs)
Position: hg19 chr21:47,063,639-47,362,364 Size: 298,726 Total Exon Count: 18 Strand: +
Coding Region
Position: hg19 chr21:47,270,000-47,361,620 Size: 91,621 Coding Exon Count: 14

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations	mRNA Descriptions
Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr21:47,063,639-47,362,364)			mRNA (may differ from genome)		Protein (371 aa)
Gene Sorter	Genome Browser	Other Species FASTA	Gene interactions	Table Schema	AlphaFold
BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards	HGNC
MGI	OMIM	PubMed	UniProtKB	Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: PCBP3_HUMAN DESCRIPTION: RecName: Full=Poly(rC)-binding protein 3; AltName: Full=Alpha-CP3; FUNCTION: Single-stranded nucleic acid binding protein that binds preferentially to oligo dC (By similarity). SUBCELLULAR LOCATION: Cytoplasm. SIMILARITY: Contains 3 KH domains. SEQUENCE CAUTION: Sequence=AAG09240.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAH12061.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAC04327.2; Type=Erroneous initiation; Note=Translation N-terminally extended;

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 D013749 Tetrachlorodibenzodioxin D001564 Benzo(a)pyrene D019256 Cadmium Chloride D002945 Cisplatin D003907 Dexamethasone D004237 Diuron D004997 Ethinyl Estradiol D018817 N-Methyl-3,4-methylenedioxyamphetamine C513635 S-2-pentyl-4-pentynoic hydroxamic acid D012999 Soman more ... click here to view the complete list

Common Gene Haplotype Alleles


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Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-131.40	422	-0.311	Picture	PostScript	Text
3' UTR	-283.90	744	-0.382	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
IPR004087 - KH_dom
IPR004088 - KH_dom_type_1

Pfam Domains:
PF00013 - KH domain
PF07650 - KH domain

SCOP Domains:
54791 - Eukaryotic type KH-domain (KH-domain type I)
54814 - Prokaryotic type KH domain (KH-domain type II)

ModBase Predicted Comparative 3D Structure on P57721


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding GO:0003676 nucleic acid binding GO:0003677 DNA binding GO:0003690 double-stranded DNA binding GO:0003723 RNA binding GO:1990829 C-rich single-stranded DNA binding Biological Process: GO:0000122 negative regulation of transcription from RNA polymerase II promoter GO:0016071 mRNA metabolic process Cellular Component: GO:0005634 nucleus GO:0005737 cytoplasm GO:0005829 cytosol GO:0070062 extracellular exosome

Descriptions from all associated GenBank mRNAs


	AK310131 - Homo sapiens cDNA, FLJ17173. AK094301 - Homo sapiens cDNA FLJ36982 fis, clone BRACE2006488, highly similar to Poly(rC)-binding protein 3. AF176329 - Homo sapiens alphaCP-3 (PCBP3) mRNA, complete cds. BC012061 - Homo sapiens poly(rC) binding protein 3, mRNA (cDNA clone MGC:19901 IMAGE:4637826), complete cds. AK310672 - Homo sapiens cDNA, FLJ17714. KJ902634 - Synthetic construct Homo sapiens clone ccsbBroadEn_12028 PCBP3 gene, encodes complete protein. KJ902635 - Synthetic construct Homo sapiens clone ccsbBroadEn_12029 PCBP3 gene, encodes complete protein. AY780793 - Homo sapiens poly(rC) binding protein 3 (PCBP3) mRNA, complete cds, alternatively spliced. JD246532 - Sequence 227556 from Patent EP1572962. JD264993 - Sequence 246017 from Patent EP1572962. JD210235 - Sequence 191259 from Patent EP1572962. JD122649 - Sequence 103673 from Patent EP1572962. JD512982 - Sequence 494006 from Patent EP1572962. JD067769 - Sequence 48793 from Patent EP1572962. JD452164 - Sequence 433188 from Patent EP1572962. JD126769 - Sequence 107793 from Patent EP1572962. AK126016 - Homo sapiens cDNA FLJ44028 fis, clone TESTI4027516. JD100055 - Sequence 81079 from Patent EP1572962. JD392813 - Sequence 373837 from Patent EP1572962. JD378551 - Sequence 359575 from Patent EP1572962. JD434248 - Sequence 415272 from Patent EP1572962. JD124918 - Sequence 105942 from Patent EP1572962. JD370169 - Sequence 351193 from Patent EP1572962. JD164204 - Sequence 145228 from Patent EP1572962. JD256133 - Sequence 237157 from Patent EP1572962. JD525866 - Sequence 506890 from Patent EP1572962. JD199157 - Sequence 180181 from Patent EP1572962. JD340398 - Sequence 321422 from Patent EP1572962. JD234736 - Sequence 215760 from Patent EP1572962. JD443710 - Sequence 424734 from Patent EP1572962. JD494418 - Sequence 475442 from Patent EP1572962. JD528757 - Sequence 509781 from Patent EP1572962.

Other Names for This Gene


	Alternate Gene Symbols: A8MPS2, A8MQ26, B7WNN9, B7WPC1, NR_145492, P57721, PCBP3 , PCBP3-OT1 , PCBP3OT , PCBP3_HUMAN, Q8N9K6, Q96EP6, uc330iuu.1, uc330iuu.2 UCSC ID: ENST00000681687.1_6 RefSeq Accession: NM_001384156.1 Protein: P57721 (aka PCBP3_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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