Human Gene NPIP (uc021tdy.1) Description and Page Index
  Description: Homo sapiens nuclear pore complex interacting protein (NPIP), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr16:18,411,798-18,466,711 Size: 54,914 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr16:18,411,825-18,466,642 Size: 54,818 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:18,411,798-18,466,711)mRNA (may differ from genome)Protein (369 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaCGAPEnsembl
Entrez GeneExonPrimerGeneCardsH-INVHGNCLynx
MGIOMIMPubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: NPIL1_HUMAN
DESCRIPTION: RecName: Full=NPIP-like protein 1;
SUBCELLULAR LOCATION: Nucleus (By similarity).
SIMILARITY: Belongs to the NPIP family.

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

+  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: 30.44 RPKM in Brain - Cerebellum
Total median expression: 266.75 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 -18.5069-0.268 Picture PostScript Text
3' UTR 0.00270.000 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 Q86VD5
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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  BC008178 - Homo sapiens hypothetical protein LOC339047, mRNA (cDNA clone IMAGE:4184431), with apparent retained intron.
AF229069 - Homo sapiens KIAA0220-like protein mRNA, complete cds.
BC010188 - Homo sapiens hypothetical protein LOC339047, mRNA (cDNA clone IMAGE:4546719), partial cds.
KJ905658 - Synthetic construct Homo sapiens clone ccsbBroadEn_15304 PKD1P1 gene, encodes complete protein.
CU692310 - Synthetic construct Homo sapiens gateway clone IMAGE:100021387 5' read LOC339047 mRNA.
JD347493 - Sequence 328517 from Patent EP1572962.
JD416161 - Sequence 397185 from Patent EP1572962.
JD082959 - Sequence 63983 from Patent EP1572962.
JD391234 - Sequence 372258 from Patent EP1572962.
JD082959 - Sequence 63983 from Patent EP1572962.
JD148746 - Sequence 129770 from Patent EP1572962.
JD318007 - Sequence 299031 from Patent EP1572962.
BC039707 - Homo sapiens hypothetical protein LOC339047, mRNA (cDNA clone MGC:47688 IMAGE:4479933), complete cds.
BC010188 - Homo sapiens hypothetical protein LOC339047, mRNA (cDNA clone IMAGE:4546719), partial cds.
BC046145 - Homo sapiens hypothetical protein LOC339047, mRNA (cDNA clone IMAGE:4179257), complete cds.
KF175170 - Homo sapiens clone 6 nuclear pore complex-interacting protein (NPIP) mRNA, partial cds.
KF175208 - Homo sapiens clone p_1 nuclear pore complex-interacting protein (NPIP) pseudogene mRNA, partial sequence.
KF175210 - Homo sapiens clone p_3 nuclear pore complex-interacting protein (NPIP) pseudogene mRNA, partial sequence.
KF175173 - Homo sapiens clone 9 nuclear pore complex-interacting protein (NPIP) mRNA, partial cds.
KF175174 - Homo sapiens clone 10 nuclear pore complex-interacting protein (NPIP) mRNA, partial cds.
KF175213 - Homo sapiens clone p_6 nuclear pore complex-interacting protein (NPIP) pseudogene mRNA, partial sequence.
KF175219 - Homo sapiens clone p_12 nuclear pore complex-interacting protein (NPIP) pseudogene mRNA, partial sequence.
KF175209 - Homo sapiens clone p_2 nuclear pore complex-interacting protein (NPIP) pseudogene mRNA, partial sequence.
KF175211 - Homo sapiens clone p_4 nuclear pore complex-interacting protein (NPIP) pseudogene mRNA, partial sequence.
KF175212 - Homo sapiens clone p_5 nuclear pore complex-interacting protein (NPIP) pseudogene mRNA, partial sequence.
KF175214 - Homo sapiens clone p_7 nuclear pore complex-interacting protein (NPIP) pseudogene mRNA, partial sequence.
AK294177 - Homo sapiens cDNA FLJ56769 complete cds, weakly similar to Nuclear pore complex-interacting protein.
AK298381 - Homo sapiens cDNA FLJ56775 complete cds, moderately similar to Nuclear pore complex-interacting protein.
KF175171 - Homo sapiens clone 7 nuclear pore complex-interacting protein (NPIP) mRNA, partial cds.
KF175168 - Homo sapiens clone 4 nuclear pore complex-interacting protein (NPIP) mRNA, partial cds.
KF175169 - Homo sapiens clone 5 nuclear pore complex-interacting protein (NPIP) mRNA, partial cds.
KF175172 - Homo sapiens clone 8 nuclear pore complex-interacting protein (NPIP) mRNA, partial cds.
KF175167 - Homo sapiens clone 3 nuclear pore complex-interacting protein (NPIP) mRNA, partial cds.
KJ906490 - Synthetic construct Homo sapiens clone ccsbBroadEn_16160 PKD1P1 gene, encodes complete protein.
JD047111 - Sequence 28135 from Patent EP1572962.
AK304604 - Homo sapiens cDNA FLJ56871 complete cds, highly similar to Polycystin-1 precursor.
DQ586845 - Homo sapiens piRNA piR-53957, complete sequence.
JD510674 - Sequence 491698 from Patent EP1572962.
JD462309 - Sequence 443333 from Patent EP1572962.
JD267990 - Sequence 249014 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CU692310, NM_006985, NPIL1_HUMAN, NP_008916, Q86VD5
UCSC ID: uc021tdy.1
Representative RNA: CU692310
Protein: Q86VD5 (aka NPIL1_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: CU692310.1
exon count: 8CDS single in 3' UTR: no RNA size: 1181
ORF size: 1110CDS single in intron: no Alignment % ID: 99.42
txCdsPredict score: 1258.00frame shift in genome: no % Coverage: 72.48
has start codon: yes stop codon in genome: no # of Alignments: 3
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.