Human Gene ABI3 (uc002iop.1) Description and Page Index
  Description: Homo sapiens ABI family, member 3 (ABI3), transcript variant 1, mRNA.
RefSeq Summary (NM_016428): This gene encodes a member of an adaptor protein family. Members of this family encode proteins containing a homeobox homology domain, proline rich region and Src-homology 3 (SH3) domain, and are components of the Abi/WAVE complex which regulates actin polymerization. The encoded protein inhibits ectopic metastasis of tumor cells as well as cell migration. This may be accomplished through interaction with p21-activated kinase. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2013].
Transcript (Including UTRs)
   Position: hg19 chr17:47,287,589-47,300,587 Size: 12,999 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr17:47,288,087-47,300,077 Size: 11,991 Coding Exon Count: 8 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:47,287,589-47,300,587)mRNA (may differ from genome)Protein (366 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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Wikipedia

-  Comments and Description Text from UniProtKB
  ID: ABI3_HUMAN
DESCRIPTION: RecName: Full=ABI gene family member 3; AltName: Full=New molecule including SH3; Short=Nesh;
FUNCTION: May inhibit tumor metastasis (By similarity). In vitro, reduces cell motility.
SUBUNIT: May interact with PAK1 and PAK2. Probably interacts with TARSH.
INTERACTION: O15372:EIF3H; NbExp=3; IntAct=EBI-742038, EBI-709735;
SUBCELLULAR LOCATION: Cytoplasm. Note=Colocalizes with PAK2 at leading edge of cells.
TISSUE SPECIFICITY: Expressed in heart, lung, liver, pancreas, kidney, placenta and at low levels in brain and skeletal muscle.
SIMILARITY: Belongs to the ABI family.
SIMILARITY: Contains 1 SH3 domain.

-  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: 53.17 RPKM in Spleen
Total median expression: 267.81 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 -214.50498-0.431 Picture PostScript Text
3' UTR -195.70510-0.384 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
IPR012849 - Abl-interactor_HHR_dom
IPR001452 - SH3_domain

Pfam Domains:
PF00018 - SH3 domain
PF07653 - Variant SH3 domain
PF07815 - Abl-interactor HHR
PF14604 - Variant SH3 domain

SCOP Domains:
50044 - SH3-domain

ModBase Predicted Comparative 3D Structure on Q9P2A4
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0042802 identical protein binding

Biological Process:
GO:0030334 regulation of cell migration
GO:0018108 peptidyl-tyrosine phosphorylation

Cellular Component:
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0016020 membrane
GO:0030027 lamellipodium


-  Descriptions from all associated GenBank mRNAs
  AB037886 - Homo sapiens mRNA for NESH, complete cds.
JD421293 - Sequence 402317 from Patent EP1572962.
JD311212 - Sequence 292236 from Patent EP1572962.
JD133067 - Sequence 114091 from Patent EP1572962.
JD439565 - Sequence 420589 from Patent EP1572962.
JD047143 - Sequence 28167 from Patent EP1572962.
AL136709 - Homo sapiens mRNA; cDNA DKFZp566N2024 (from clone DKFZp566N2024).
JD173238 - Sequence 154262 from Patent EP1572962.
JD403339 - Sequence 384363 from Patent EP1572962.
JD210513 - Sequence 191537 from Patent EP1572962.
JD554797 - Sequence 535821 from Patent EP1572962.
JD555653 - Sequence 536677 from Patent EP1572962.
JD333885 - Sequence 314909 from Patent EP1572962.
JD478881 - Sequence 459905 from Patent EP1572962.
BC007780 - Homo sapiens ABI family, member 3, mRNA (cDNA clone MGC:12626 IMAGE:4309524), complete cds.
AB463387 - Synthetic construct DNA, clone: pF1KB8326, Homo sapiens ABI3 gene for ABI gene family, member 3, without stop codon, in Flexi system.
AM392779 - Synthetic construct Homo sapiens clone IMAGE:100001776 for hypothetical protein (ABI3 gene).
AM392922 - Synthetic construct Homo sapiens clone IMAGE:100001951 for hypothetical protein (ABI3 gene).
DQ893090 - Synthetic construct clone IMAGE:100005720; FLH193646.01X; RZPDo839A0779D ABI gene family, member 3 (ABI3) gene, encodes complete protein.
DQ896362 - Synthetic construct Homo sapiens clone IMAGE:100010822; FLH193642.01L; RZPDo839A0769D ABI gene family, member 3 (ABI3) gene, encodes complete protein.
KJ893853 - Synthetic construct Homo sapiens clone ccsbBroadEn_03247 ABI3 gene, encodes complete protein.
JD468239 - Sequence 449263 from Patent EP1572962.
JD205737 - Sequence 186761 from Patent EP1572962.
JD423910 - Sequence 404934 from Patent EP1572962.
JD335495 - Sequence 316519 from Patent EP1572962.
JD518702 - Sequence 499726 from Patent EP1572962.
JD157823 - Sequence 138847 from Patent EP1572962.
JD262230 - Sequence 243254 from Patent EP1572962.
JD163965 - Sequence 144989 from Patent EP1572962.
JD382602 - Sequence 363626 from Patent EP1572962.
JD251590 - Sequence 232614 from Patent EP1572962.
JD455260 - Sequence 436284 from Patent EP1572962.
JD500623 - Sequence 481647 from Patent EP1572962.
JD190875 - Sequence 171899 from Patent EP1572962.
JD319732 - Sequence 300756 from Patent EP1572962.
JD338492 - Sequence 319516 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ABI3_HUMAN, C9IZN8, NESH, NM_016428, NP_057512, Q9H0P6, Q9P2A4
UCSC ID: uc002iop.1
RefSeq Accession: NM_016428
Protein: Q9P2A4 (aka ABI3_HUMAN)
CCDS: CCDS11546.1, CCDS45725.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_016428.2
exon count: 8CDS single in 3' UTR: no RNA size: 2129
ORF size: 1101CDS single in intron: no Alignment % ID: 99.95
txCdsPredict score: 2186.00frame shift in genome: no % Coverage: 99.06
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
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.