Human Gene SNX11 (uc010wli.1) Description and Page Index
  Description: Homo sapiens sorting nexin 11 (SNX11), transcript variant 1, mRNA.
RefSeq Summary (NM_152244): This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. This protein does not contain a coiled coil region, like some family members. This gene encodes a protein of unknown function. This gene results in two transcript variants differing in the 5' UTR, but encoding the same protein. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr17:46,184,920-46,200,105 Size: 15,186 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr17:46,189,976-46,198,870 Size: 8,895 Coding Exon Count: 4 

Page IndexSequence and LinksCTDGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:46,184,920-46,200,105)mRNA (may differ from genome)Protein (209 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMGIPubMedStanford SOURCE
TreefamUniProtKB

-  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: 30.81 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 396.81 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 -185.30436-0.425 Picture PostScript Text
3' UTR -490.831235-0.397 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
IPR001683 - Phox

Pfam Domains:
PF00787 - PX domain

SCOP Domains:
64268 - PX domain

ModBase Predicted Comparative 3D Structure on B4DKH7
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:0035091 phosphatidylinositol binding

Biological Process:
GO:0006886 intracellular protein transport

Cellular Component:
GO:0005622 intracellular


-  Descriptions from all associated GenBank mRNAs
  AK316374 - Homo sapiens cDNA, FLJ79273 complete cds, highly similar to Sorting nexin-11.
AK296095 - Homo sapiens cDNA FLJ51481 complete cds, highly similar to Sorting nexin-11.
AK091852 - Homo sapiens cDNA FLJ34533 fis, clone HLUNG2008247, highly similar to Sorting nexin-11.
AK023932 - Homo sapiens cDNA FLJ13870 fis, clone THYRO1001313, highly similar to Homo sapiens sorting nexin 11 (SNX11) mRNA.
AK296569 - Homo sapiens cDNA FLJ57149 complete cds, highly similar to Sorting nexin-11.
AF121861 - Homo sapiens sorting nexin 11 (SNX11) mRNA, complete cds.
JD085816 - Sequence 66840 from Patent EP1572962.
JD137853 - Sequence 118877 from Patent EP1572962.
BC103721 - Homo sapiens sorting nexin 11, mRNA (cDNA clone MGC:111019 IMAGE:6162638), complete cds.
JD526845 - Sequence 507869 from Patent EP1572962.
AK298551 - Homo sapiens cDNA FLJ54273 complete cds, highly similar to Sorting nexin-11.
BC000768 - Homo sapiens sorting nexin 11, mRNA (cDNA clone MGC:2818 IMAGE:2963905), complete cds.
KJ893709 - Synthetic construct Homo sapiens clone ccsbBroadEn_03103 SNX11 gene, encodes complete protein.
CU674392 - Synthetic construct Homo sapiens gateway clone IMAGE:100018068 5' read SNX11 mRNA.
BT006723 - Homo sapiens sorting nexin 11 mRNA, complete cds.
DQ596698 - Homo sapiens piRNA piR-34764, complete sequence.
JD333371 - Sequence 314395 from Patent EP1572962.
JD174916 - Sequence 155940 from Patent EP1572962.
JD486797 - Sequence 467821 from Patent EP1572962.
JD111842 - Sequence 92866 from Patent EP1572962.
JD401877 - Sequence 382901 from Patent EP1572962.
JD118495 - Sequence 99519 from Patent EP1572962.
JD052308 - Sequence 33332 from Patent EP1572962.
JD501748 - Sequence 482772 from Patent EP1572962.
JD300820 - Sequence 281844 from Patent EP1572962.
JD427218 - Sequence 408242 from Patent EP1572962.
JD148445 - Sequence 129469 from Patent EP1572962.
JD334640 - Sequence 315664 from Patent EP1572962.
JD190115 - Sequence 171139 from Patent EP1572962.
JD382617 - Sequence 363641 from Patent EP1572962.
JD480642 - Sequence 461666 from Patent EP1572962.
JD404791 - Sequence 385815 from Patent EP1572962.
JD298806 - Sequence 279830 from Patent EP1572962.
JD432707 - Sequence 413731 from Patent EP1572962.
JD565821 - Sequence 546845 from Patent EP1572962.
JD392821 - Sequence 373845 from Patent EP1572962.
LF209291 - JP 2014500723-A/16794: Polycomb-Associated Non-Coding RNAs.
JD259587 - Sequence 240611 from Patent EP1572962.
JD522957 - Sequence 503981 from Patent EP1572962.
LF327478 - JP 2014500723-A/134981: Polycomb-Associated Non-Coding RNAs.
MA563055 - JP 2018138019-A/134981: Polycomb-Associated Non-Coding RNAs.
MA444868 - JP 2018138019-A/16794: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AK296569, B4DKH7, B4DKH7_HUMAN
UCSC ID: uc010wli.1
RefSeq Accession: NM_152244
Protein: B4DKH7

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK296569.1
exon count: 7CDS single in 3' UTR: no RNA size: 1426
ORF size: 630CDS single in intron: no Alignment % ID: 99.79
txCdsPredict score: 1275.00frame 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.