Human Gene CPSF4L (uc010dfk.1) Description and Page Index
  Description: Homo sapiens cleavage and polyadenylation specific factor 4-like (CPSF4L), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr17:71,244,588-71,258,019 Size: 13,432 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr17:71,244,633-71,257,957 Size: 13,325 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:71,244,588-71,258,019)mRNA (may differ from genome)Protein (179 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
HGNCLynxMGIneXtProtPubMedStanford SOURCE
TreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CPS4L_HUMAN
DESCRIPTION: RecName: Full=Putative cleavage and polyadenylation specificity factor subunit 4-like protein;
SIMILARITY: Belongs to the CPSF4/YTH1 family.
SIMILARITY: Contains 5 C3H1-type zinc fingers.
SEQUENCE CAUTION: Sequence=AC087301; Type=Erroneous gene model prediction;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CPSF4L
CDC HuGE Published Literature: CPSF4L

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.25 RPKM in Testis
Total median expression: 1.76 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 -19.8062-0.319 Picture PostScript Text
3' UTR -9.9045-0.220 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
IPR000571 - Znf_CCCH

Pfam Domains:
PF00642 - Zinc finger C-x8-C-x5-C-x3-H type (and similar)
PF14608 - RNA-binding, Nab2-type zinc finger
PF15663 - Zinc-finger containing family

SCOP Domains:
90229 - CCCH zinc finger

ModBase Predicted Comparative 3D Structure on A6NMK7
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     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0004521 endoribonuclease activity
GO:0046872 metal ion binding

Biological Process:
GO:0006378 mRNA polyadenylation
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic
GO:0098789 pre-mRNA cleavage required for polyadenylation

Cellular Component:
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex


-  Descriptions from all associated GenBank mRNAs
  BC157870 - Homo sapiens cleavage and polyadenylation specific factor 4-like, mRNA (cDNA clone MGC:189765 IMAGE:9057089), complete cds.
KJ896318 - Synthetic construct Homo sapiens clone ccsbBroadEn_05712 CPSF4L gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NMK7, A8MU95, B2RXI9, CPS4L_HUMAN, NM_001129885, NP_001123357
UCSC ID: uc010dfk.1
RefSeq Accession: NM_001129885
Protein: A6NMK7 (aka CPS4L_HUMAN)
CCDS: CCDS45768.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001129885.1
exon count: 6CDS single in 3' UTR: no RNA size: 647
ORF size: 540CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1229.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.