Human Gene ZFR (ENST00000265069.13_7) from GENCODE V47lift37
  Description: zinc finger RNA binding protein (from RefSeq NR_144318.2)
Gencode Transcript: ENST00000265069.13_7
Gencode Gene: ENSG00000056097.16_10
Transcript (Including UTRs)
   Position: hg19 chr5:32,354,456-32,444,846 Size: 90,391 Total Exon Count: 20 Strand: -
Coding Region
   Position: hg19 chr5:32,355,866-32,444,764 Size: 88,899 Coding Exon Count: 20 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:32,354,456-32,444,846)mRNA (may differ from genome)Protein (1074 aa)
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ZFR_HUMAN
DESCRIPTION: RecName: Full=Zinc finger RNA-binding protein; Short=hZFR; AltName: Full=M-phase phosphoprotein homolog;
FUNCTION: Involved in postimplantation and gastrulation stages of development. Involved in the nucleocytoplasmic shuttling of STAU2. Binds to DNA and RNA (By similarity).
SUBUNIT: Found in a cytoplasmic RNP complex with STAU2. Interacts with STAU2. Does not interact with STAU1 (By similarity).
INTERACTION: Q15796:SMAD2; NbExp=2; IntAct=EBI-2513582, EBI-1040141;
SUBCELLULAR LOCATION: Nucleus (By similarity). Cytoplasm (By similarity). Cytoplasmic granule (By similarity). Chromosome (By similarity). Note=Associated with chromosome foci in meiotic cells. Localizes in somatodendritic compartment of primary hippocampal neurons. Colocalizes with STAU2 in several cytosolic RNA granules (By similarity).
TISSUE SPECIFICITY: Expressed in lung, liver, lymphocytes, heart, pancreas, placenta, brain and kidney.
SIMILARITY: Contains 1 DZF domain.
SEQUENCE CAUTION: Sequence=AAD40385.1; Type=Erroneous initiation; Sequence=AAH30540.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=AAI07418.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=BAB15147.1; Type=Erroneous initiation; Sequence=CAC40818.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=CAC40818.1; Type=Frameshift; Positions=1057;

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: ZFR
Diseases sorted by gene-association score: autosomal recessive spastic paraplegia type 71* (350), cri-du-chat syndrome (6)
* = Manually curated disease association

-  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: 32.84 RPKM in Brain - Nucleus accumbens (basal ganglia)
Total median expression: 1147.41 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 -28.0082-0.341 Picture PostScript Text
3' UTR -313.301410-0.222 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
IPR006561 - DZF
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR003604 - Znf_U1

Pfam Domains:
PF07528 - DZF domain
PF12874 - Zinc-finger of C2H2 type

SCOP Domains:
57667 - beta-beta-alpha zinc fingers

ModBase Predicted Comparative 3D Structure on Q96KR1
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 DetailsGene Details Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0008270 zinc ion binding

Biological Process:
GO:0007275 multicellular organism development

Cellular Component:
GO:0005634 nucleus
GO:0005694 chromosome
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK025481 - Homo sapiens cDNA: FLJ21828 fis, clone HEP01453.
AF100742 - Homo sapiens M-phase phosphoprotein homolog mRNA, complete cds.
BC038973 - Homo sapiens zinc finger RNA binding protein, mRNA (cDNA clone IMAGE:5532482), partial cds.
BC062986 - Homo sapiens zinc finger RNA binding protein, mRNA (cDNA clone IMAGE:4328389), partial cds.
AK123306 - Homo sapiens cDNA FLJ41312 fis, clone BRAMY2042804, highly similar to Homo sapiens zinc finger RNA binding protein (ZFR), mRNA.
BC051893 - Homo sapiens zinc finger RNA binding protein, mRNA (cDNA clone IMAGE:6146773), partial cds.
AK307808 - Homo sapiens cDNA, FLJ97756.
BC137085 - Homo sapiens zinc finger RNA binding protein, mRNA (cDNA clone MGC:168705 IMAGE:9021082), complete cds.
BC137084 - Homo sapiens zinc finger RNA binding protein, mRNA (cDNA clone MGC:168704 IMAGE:9021081), complete cds.
BC000376 - Homo sapiens cDNA clone IMAGE:2820268, **** WARNING: chimeric clone ****.
BC000746 - Homo sapiens cDNA clone IMAGE:2820268, **** WARNING: chimeric clone ****.
AJ314790 - Homo sapiens mRNA for putative zinc finger protein (ZFR gene).
AK295297 - Homo sapiens cDNA FLJ60545 complete cds, highly similar to Homo sapiens zinc finger RNA binding protein (ZFR), mRNA.
KJ904758 - Synthetic construct Homo sapiens clone ccsbBroadEn_14152 ZFR-like gene, encodes complete protein.
AL137258 - Homo sapiens mRNA; cDNA DKFZp434D0213 (from clone DKFZp434D0213); partial cds.
JD551576 - Sequence 532600 from Patent EP1572962.
JD196733 - Sequence 177757 from Patent EP1572962.
AK055938 - Homo sapiens cDNA FLJ31376 fis, clone NESOP1000010, highly similar to Homo sapiens zinc finger RNA binding protein (ZFR), mRNA.
JD086907 - Sequence 67931 from Patent EP1572962.
JD217842 - Sequence 198866 from Patent EP1572962.
JD549393 - Sequence 530417 from Patent EP1572962.
JD452874 - Sequence 433898 from Patent EP1572962.
JD548539 - Sequence 529563 from Patent EP1572962.
JD172384 - Sequence 153408 from Patent EP1572962.
AK292214 - Homo sapiens cDNA FLJ75527 partial cds, highly similar to Homo sapiens zinc finger RNA binding protein (ZFR), mRNA.
BC030540 - Homo sapiens zinc finger RNA binding protein, mRNA (cDNA clone IMAGE:4399348), partial cds.
BC107417 - Homo sapiens zinc finger RNA binding protein, mRNA (cDNA clone IMAGE:4048158), partial cds.
AK309638 - Homo sapiens cDNA, FLJ99679.
BC017879 - Homo sapiens zinc finger RNA binding protein, mRNA (cDNA clone IMAGE:4272814), complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RNR5, ENST00000265069.1, ENST00000265069.10, ENST00000265069.11, ENST00000265069.12, ENST00000265069.2, ENST00000265069.3, ENST00000265069.4, ENST00000265069.5, ENST00000265069.6, ENST00000265069.7, ENST00000265069.8, ENST00000265069.9, NR_144318, Q05C08, Q3B7X5, Q6P5A3, Q86UA0, Q96KR1, Q9H6V4, Q9NTI1, Q9Y687, uc317hyc.1, uc317hyc.2, ZFR_HUMAN
UCSC ID: ENST00000265069.13_7
RefSeq Accession: NM_016107.5
Protein: Q96KR1 (aka ZFR_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.