Human Gene AGAP9 (uc009xnf.2) Description and Page Index
  Description: Homo sapiens ArfGAP with GTPase domain, ankyrin repeat and PH domain 9 (AGAP9), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr10:47,191,844-47,213,626 Size: 21,783 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr10:47,192,142-47,213,514 Size: 21,373 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:47,191,844-47,213,626)mRNA (may differ from genome)Protein (658 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsHGNC
LynxMGIPubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: D3YTF3_HUMAN
DESCRIPTION: SubName: Full=Arf-GAP with GTPase, ANK repeat and PH domain-containing protein 9;
SIMILARITY: Contains 1 Arf-GAP domain.
SIMILARITY: Contains 1 PH domain.
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.38 RPKM in Testis
Total median expression: 8.41 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 -39.60112-0.354 Picture PostScript Text
3' UTR -76.21298-0.256 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
IPR020683 - Ankyrin_rpt-contain_dom
IPR001164 - ArfGAP
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology

Pfam Domains:
PF00023 - Ankyrin repeat
PF01412 - Putative GTPase activating protein for Arf

SCOP Domains:
50729 - PH domain-like
48403 - Ankyrin repeat
57863 - Pyk2-associated protein beta ARF-GAP domain

ModBase Predicted Comparative 3D Structure on D3YTF3
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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     
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-  Descriptions from all associated GenBank mRNAs
  AK160375 - Homo sapiens mRNA for FLJ00312 protein.
BC075841 - Homo sapiens hypothetical protein LOC642517, mRNA (cDNA clone IMAGE:4865591).
BC171820 - Homo sapiens cDNA clone IMAGE:9054474.
BC171845 - Homo sapiens cDNA clone IMAGE:9054499.
BC171847 - Homo sapiens cDNA clone IMAGE:9054501, **** WARNING: chimeric clone ****.
JD439262 - Sequence 420286 from Patent EP1572962.
JD439263 - Sequence 420287 from Patent EP1572962.
JD371166 - Sequence 352190 from Patent EP1572962.
JD191993 - Sequence 173017 from Patent EP1572962.
JD130405 - Sequence 111429 from Patent EP1572962.
DQ600245 - Homo sapiens piRNA piR-38311, complete sequence.
DQ595421 - Homo sapiens piRNA piR-61533, complete sequence.
DQ597431 - Homo sapiens piRNA piR-35497, complete sequence.
DQ597262 - Homo sapiens piRNA piR-35328, complete sequence.
DQ597261 - Homo sapiens piRNA piR-35327, complete sequence.
DQ575445 - Homo sapiens piRNA piR-43557, complete sequence.
DQ571726 - Homo sapiens piRNA piR-31838, complete sequence.
JD288217 - Sequence 269241 from Patent EP1572962.
JD373135 - Sequence 354159 from Patent EP1572962.
DQ582291 - Homo sapiens piRNA piR-32403, complete sequence.
JD451630 - Sequence 432654 from Patent EP1572962.
JD296245 - Sequence 277269 from Patent EP1572962.
JD202261 - Sequence 183285 from Patent EP1572962.
AK309024 - Homo sapiens cDNA, FLJ99065.
JD530864 - Sequence 511888 from Patent EP1572962.
JD498448 - Sequence 479472 from Patent EP1572962.
JD266547 - Sequence 247571 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: D3YTF3, D3YTF3_HUMAN, NM_001190810, NP_001177739
UCSC ID: uc009xnf.2
RefSeq Accession: NM_001190810
Protein: D3YTF3

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001190810.1
exon count: 8CDS single in 3' UTR: no RNA size: 2387
ORF size: 1977CDS single in intron: no Alignment % ID: 99.96
txCdsPredict score: 2738.00frame 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: 147# 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.