Human Gene ZRANB2 (ENST00000370920.8_11) from GENCODE V47lift37
  Description: zinc finger RANBP2-type containing 2, transcript variant 1 (from RefSeq NM_203350.3)
Gencode Transcript: ENST00000370920.8_11
Gencode Gene: ENSG00000132485.14_16
Transcript (Including UTRs)
   Position: hg19 chr1:71,528,974-71,546,718 Size: 17,745 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr1:71,530,757-71,546,678 Size: 15,922 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:71,528,974-71,546,718)mRNA (may differ from genome)Protein (330 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ZRAB2_HUMAN
DESCRIPTION: RecName: Full=Zinc finger Ran-binding domain-containing protein 2; AltName: Full=Zinc finger protein 265; AltName: Full=Zinc finger, splicing;
FUNCTION: Splice factor required for alternative splicing of TRA2B/SFRS10 transcripts. May interfere with constitutive 5'- splice site selection.
SUBUNIT: Interacts with the C-terminal half of SNRNP70, the Arg/Ser-rich domain of AKAP17A as well as with U2AF1 and CLK1.
INTERACTION: Q02040:AKAP17A; NbExp=4; IntAct=EBI-1051583, EBI-1042725; P49407:ARRB1; NbExp=4; IntAct=EBI-1051583, EBI-743313; P32121:ARRB2; NbExp=4; IntAct=EBI-1051583, EBI-714559;
SUBCELLULAR LOCATION: Nucleus.
DOMAIN: The RanBP2-type zinc fingers mediate binding to RNA.
PTM: Isoform 2 is phosphorylated on Ser-310 upon DNA damage, probably by ATM or ATR.
SIMILARITY: Belongs to the ZRANB2 family.
SIMILARITY: Contains 2 RanBP2-type zinc fingers.
SEQUENCE CAUTION: Sequence=AAD09746.1; Type=Frameshift; Positions=236; Sequence=AAD09747.1; Type=Frameshift; Positions=236; Sequence=BAD92805.1; Type=Miscellaneous discrepancy; Note=Intron retention; Sequence=CAB66879.1; Type=Frameshift; Positions=236;

-  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           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 69.12 RPKM in Pituitary
Total median expression: 1544.75 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
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -10.3040-0.257 Picture PostScript Text
3' UTR -386.001783-0.216 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
IPR017337 - UCP037956_Znf_RanB2
IPR001876 - Znf_RanBP2

Pfam Domains:
PF00641 - Zn-finger in Ran binding protein and others

SCOP Domains:
50249 - Nucleic acid-binding proteins
90209 - Ran binding protein zinc finger-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1N0Z - NMR MuPIT 2K1P - NMR MuPIT 3G9Y - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on O95218
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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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0046872 metal ion binding

Biological Process:
GO:0006355 regulation of transcription, DNA-templated
GO:0006397 mRNA processing
GO:0008380 RNA splicing

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  CR749325 - Homo sapiens mRNA; cDNA DKFZp686J1831 (from clone DKFZp686J1831).
AF065391 - Homo sapiens ZIS1 mRNA, complete cds.
BX538141 - Homo sapiens mRNA; cDNA DKFZp686N09117 (from clone DKFZp686N09117).
CR749665 - Homo sapiens mRNA; cDNA DKFZp686N09117 (from clone DKFZp686N09117).
AK055983 - Homo sapiens cDNA FLJ31421 fis, clone NT2NE2000383.
AK023252 - Homo sapiens cDNA FLJ13190 fis, clone NT2RP3004258, highly similar to Homo sapiens ZIS1 mRNA.
JD019263 - Sequence 287 from Patent EP1572962.
AL136945 - Homo sapiens mRNA; cDNA DKFZp586O012 (from clone DKFZp586O012).
BC033648 - Homo sapiens zinc finger, RAN-binding domain containing 2, mRNA (cDNA clone IMAGE:5228248).
AK123114 - Homo sapiens cDNA FLJ41119 fis, clone BRACE2007089.
AK222858 - Homo sapiens mRNA for zinc finger protein 265 isoform 1 variant, clone: HEP14357.
AB209568 - Homo sapiens mRNA for zinc finger protein 265 isoform 1 variant protein.
JD032876 - Sequence 13900 from Patent EP1572962.
JD352248 - Sequence 333272 from Patent EP1572962.
JD413946 - Sequence 394970 from Patent EP1572962.
JD501341 - Sequence 482365 from Patent EP1572962.
JD299381 - Sequence 280405 from Patent EP1572962.
JD286334 - Sequence 267358 from Patent EP1572962.
JD019063 - Sequence 87 from Patent EP1572962.
JD032693 - Sequence 13717 from Patent EP1572962.
BC039814 - Homo sapiens zinc finger, RAN-binding domain containing 2, mRNA (cDNA clone MGC:48676 IMAGE:6062647), complete cds.
JD313801 - Sequence 294825 from Patent EP1572962.
JD349650 - Sequence 330674 from Patent EP1572962.
JD437244 - Sequence 418268 from Patent EP1572962.
JD296408 - Sequence 277432 from Patent EP1572962.
JD549360 - Sequence 530384 from Patent EP1572962.
JD042232 - Sequence 23256 from Patent EP1572962.
JD213852 - Sequence 194876 from Patent EP1572962.
AF065392 - Homo sapiens ZIS2 mRNA, complete cds.
JD327447 - Sequence 308471 from Patent EP1572962.
KJ898018 - Synthetic construct Homo sapiens clone ccsbBroadEn_07412 ZRANB2 gene, encodes complete protein.
EU446929 - Synthetic construct Homo sapiens clone IMAGE:100070177; IMAGE:100012138; FLH258184.01L zinc finger, RAN-binding domain containing 2 (ZRANB2) gene, encodes complete protein.
CU691764 - Synthetic construct Homo sapiens gateway clone IMAGE:100021372 5' read ZRANB2 mRNA.
BC010962 - Homo sapiens zinc finger protein 265, mRNA (cDNA clone IMAGE:4272300), with apparent retained intron.

-  Other Names for This Gene
  Alternate Gene Symbols: D3DQ75, ENST00000370920.1, ENST00000370920.2, ENST00000370920.3, ENST00000370920.4, ENST00000370920.5, ENST00000370920.6, ENST00000370920.7, NM_203350, O95218, Q53GS3, Q59F92, Q5VV33, Q5VV34, Q8IXN6, Q9UP63, uc318itp.1, uc318itp.2, ZIS, ZNF265, ZRAB2_HUMAN
UCSC ID: ENST00000370920.8_11
RefSeq Accession: NM_203350.3
Protein: O95218 (aka ZRAB2_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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