Human Gene NPIPB6 (uc010vcq.2)
  Description: SubName: Full=Uncharacterized protein;
Transcript (Including UTRs)
   Position: hg19 chr16:28,353,876-28,367,975 Size: 14,100 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr16:28,353,928-28,367,922 Size: 13,995 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:28,353,876-28,367,975)mRNA (may differ from genome)Protein (407 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldEnsembl
ExonPrimerGeneCardsLynxMGIPubMedUniProtKB

-  Comments and Description Text from UniProtKB
  ID: E9PS57_HUMAN
DESCRIPTION: SubName: Full=Uncharacterized protein;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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


+  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: 13.62 RPKM in Testis
Total median expression: 32.59 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 -14.4053-0.272 Picture PostScript Text
3' UTR 0.00520.000 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
IPR009443 - NPIP

Pfam Domains:
PF06409 - Nuclear pore complex interacting protein (NPIP)

ModBase Predicted Comparative 3D Structure on E9PS57
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 Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  BC144439 - Homo sapiens cDNA clone IMAGE:9052962.
BC157836 - Homo sapiens hypothetical LOC728741, mRNA (cDNA clone MGC:189731 IMAGE:9057055), complete cds.
JD405478 - Sequence 386502 from Patent EP1572962.
JD452519 - Sequence 433543 from Patent EP1572962.
JD487334 - Sequence 468358 from Patent EP1572962.
JD100455 - Sequence 81479 from Patent EP1572962.
JD051318 - Sequence 32342 from Patent EP1572962.
JD168691 - Sequence 149715 from Patent EP1572962.
JD265689 - Sequence 246713 from Patent EP1572962.
JD120874 - Sequence 101898 from Patent EP1572962.
JD320594 - Sequence 301618 from Patent EP1572962.
JD041123 - Sequence 22147 from Patent EP1572962.
JD360504 - Sequence 341528 from Patent EP1572962.
JD120385 - Sequence 101409 from Patent EP1572962.
JD096807 - Sequence 77831 from Patent EP1572962.
JD352353 - Sequence 333377 from Patent EP1572962.
JD449214 - Sequence 430238 from Patent EP1572962.
JD148745 - Sequence 129769 from Patent EP1572962.
BC156858 - Synthetic construct Homo sapiens clone IMAGE:100062507, MGC:190534 nuclear pore complex interacting protein-like 1 (NPIPL1) mRNA, encodes complete protein.
AB527617 - Synthetic construct DNA, clone: pF1KE0285, Homo sapiens NPIPL1 gene for nuclear pore complex interacting protein-like 1, without stop codon, in Flexi system.
DQ597666 - Homo sapiens piRNA piR-35732, complete sequence.
JD556281 - Sequence 537305 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: BC144439, E9PS57, E9PS57_HUMAN, NPIPL1
UCSC ID: uc010vcq.2
Representative RNA: BC144439
Protein: E9PS57

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC144439.1
exon count: 7CDS single in 3' UTR: no RNA size: 1329
ORF size: 1224CDS single in intron: no Alignment % ID: 99.70
txCdsPredict score: 2104.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 2
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.