Human Gene ZCRB1 (ENST00000266529.8_7) from GENCODE V47lift37

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Description: zinc finger CCHC-type and RNA binding motif containing 1 (from RefSeq NM_033114.4)
Gencode Transcript: ENST00000266529.8_7
Gencode Gene: ENSG00000139168.9_13
Transcript (Including UTRs)
Position: hg19 chr12:42,705,888-42,719,896 Size: 14,009 Total Exon Count: 8 Strand: -
Coding Region
Position: hg19 chr12:42,706,869-42,717,904 Size: 11,036 Coding Exon Count: 7

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Pathways	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 (chr12:42,705,888-42,719,896)			mRNA (may differ from genome)		Protein (217 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	OMIM	PubMed	Reactome	UniProtKB
BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: ZCRB1_HUMAN DESCRIPTION: RecName: Full=Zinc finger CCHC-type and RNA-binding motif-containing protein 1; AltName: Full=U11/U12 small nuclear ribonucleoprotein 31 kDa protein; Short=U11/U12 snRNP 31 kDa protein; Short=U11/U12-31K; SUBUNIT: Component of the U11/U12 snRNPs that are part of the U12- type spliceosome. SUBCELLULAR LOCATION: Nucleus, nucleoplasm. INDUCTION: Up-regulated by morphine. Down-regulated at 30-36 degrees Celsius while it is up-regulated at 39 degrees Celsius. SIMILARITY: Contains 1 CCHC-type zinc finger. SIMILARITY: Contains 1 RRM (RNA recognition motif) domain.

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 C016403 2,4-dinitrotoluene C023514 2,6-dinitrotoluene D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide D047310 Apigenin D019256 Cadmium Chloride D003993 Dibutyl Phthalate D013749 Tetrachlorodibenzodioxin C005961 bis(tri-n-butyltin)oxide C006780 bisphenol A

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 40.31 RPKM in Brain - Spinal cord (cervical c-1) Total median expression: 867.93 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

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	-61.10	173	-0.353	Picture	PostScript	Text
3' UTR	-168.70	981	-0.172	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
IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom
IPR001878 - Znf_CCHC

Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF00098 - Zinc knuckle
PF13893 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF13917 - Zinc knuckle

SCOP Domains:
54928 - RNA-binding domain, RBD
57756 - Retrovirus zinc finger-like domains

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2E5H - NMR MuPIT

ModBase Predicted Comparative 3D Structure on Q8TBF4


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:0003676 nucleic acid binding GO:0003723 RNA binding GO:0008270 zinc ion binding GO:0046872 metal ion binding Biological Process: GO:0000398 mRNA splicing, via spliceosome GO:0006397 mRNA processing GO:0008380 RNA splicing Cellular Component: GO:0005634 nucleus GO:0005654 nucleoplasm GO:0005681 spliceosomal complex GO:0005689 U12-type spliceosomal complex

Descriptions from all associated GenBank mRNAs


	BC022543 - Homo sapiens zinc finger CCHC-type and RNA binding motif 1, mRNA (cDNA clone MGC:26805 IMAGE:4797962), complete cds. JD432766 - Sequence 413790 from Patent EP1572962. JD259809 - Sequence 240833 from Patent EP1572962. JD052999 - Sequence 34023 from Patent EP1572962. JD312729 - Sequence 293753 from Patent EP1572962. AB062361 - Homo sapiens ZCRB1 mRNA for ZCRB1 protein, complete cds. CU692688 - Synthetic construct Homo sapiens gateway clone IMAGE:100018037 5' read ZCRB1 mRNA. DQ892091 - Synthetic construct clone IMAGE:100004721; FLH185526.01X; RZPDo839C02148D zinc finger CCHC-type and RNA binding motif 1 (ZCRB1) gene, encodes complete protein. KJ899870 - Synthetic construct Homo sapiens clone ccsbBroadEn_09264 ZCRB1 gene, encodes complete protein. DQ895284 - Synthetic construct Homo sapiens clone IMAGE:100009744; FLH185522.01L; RZPDo839C02147D zinc finger CCHC-type and RNA binding motif 1 (ZCRB1) gene, encodes complete protein. AB528890 - Synthetic construct DNA, clone: pF1KE0641, Homo sapiens ZCRB1 gene for zinc finger CCHC-type and RNA binding motif containing protein 1, without stop codon, in Flexi system. AK308244 - Homo sapiens cDNA, FLJ98192. BC005099 - Homo sapiens zinc finger CCHC-type and RNA binding motif 1, mRNA (cDNA clone IMAGE:3609027), partial cds. BC010177 - Homo sapiens zinc finger CCHC-type and RNA binding motif 1, mRNA (cDNA clone IMAGE:3538388), partial cds. JD479006 - Sequence 460030 from Patent EP1572962. JD219060 - Sequence 200084 from Patent EP1572962. JD411726 - Sequence 392750 from Patent EP1572962. JD174270 - Sequence 155294 from Patent EP1572962. JD264371 - Sequence 245395 from Patent EP1572962. JD147214 - Sequence 128238 from Patent EP1572962. JD451999 - Sequence 433023 from Patent EP1572962. JD451998 - Sequence 433022 from Patent EP1572962. JD436651 - Sequence 417675 from Patent EP1572962.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein Q8TBF4 (Reactome details) participates in the following event(s): R-HSA-75080 Formation of AT-AC A complex R-HSA-75083 ATAC spliceosome mediated 3' splice site cleavage, exon ligation R-HSA-75081 Formation of AT-AC B Complex R-HSA-75082 ATAC spliceosome mediated Lariat formation,5' splice site cleavage R-HSA-75079 Formation of AT-AC C complex R-HSA-72165 mRNA Splicing - Minor Pathway R-HSA-72172 mRNA Splicing R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA R-HSA-8953854 Metabolism of RNA

Other Names for This Gene


	Alternate Gene Symbols: ENST00000266529.1, ENST00000266529.2, ENST00000266529.3, ENST00000266529.4, ENST00000266529.5, ENST00000266529.6, ENST00000266529.7, NM_033114, Q6PJX0, Q8TBF4, Q96TA6, uc317ihh.1, uc317ihh.2, ZCRB1_HUMAN UCSC ID: ENST00000266529.8_7 RefSeq Accession: NM_033114.4 Protein: Q8TBF4 (aka ZCRB1_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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