Human Gene STRIP1 (ENST00000369795.8_4) from GENCODE V47lift37
  Description: striatin interacting protein 1, transcript variant 1 (from RefSeq NM_033088.4)
Gencode Transcript: ENST00000369795.8_4
Gencode Gene: ENSG00000143093.15_8
Transcript (Including UTRs)
   Position: hg19 chr1:110,577,246-110,597,263 Size: 20,018 Total Exon Count: 21 Strand: +
Coding Region
   Position: hg19 chr1:110,577,260-110,596,534 Size: 19,275 Coding Exon Count: 21 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:110,577,246-110,597,263)mRNA (may differ from genome)Protein (837 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: FA40A_HUMAN
DESCRIPTION: RecName: Full=Protein FAM40A;
FUNCTION: Plays a role in the regulation of cell morphology and cytoskeletal organization. Required in the cortical actin filament dynamics and cell shape.
INTERACTION: Q9P2B4:CTTNBP2NL; NbExp=3; IntAct=EBI-1773588, EBI-1774273; Q9P289:MST4; NbExp=2; IntAct=EBI-1773588, EBI-618239; Q9Y228:TRAF3IP3; NbExp=2; IntAct=EBI-1773588, EBI-765817;
SUBCELLULAR LOCATION: Cytoplasm. Note=Enriched on the plasma membrane.
SIMILARITY: Belongs to the FAM40 family.
SEQUENCE CAUTION: Sequence=AAH32644.1; Type=Erroneous initiation;

-  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


-  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: 20.81 RPKM in Brain - Cerebellum
Total median expression: 536.43 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -244.00729-0.335 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
IPR021819 - DUF3402
IPR012486 - N1221

Pfam Domains:
PF07923 - N1221-like protein
PF11882 - Domain of unknown function (DUF3402)

SCOP Domains:
101447 - Formin homology 2 domain (FH2 domain)

ModBase Predicted Comparative 3D Structure on Q5VSL9
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 DetailsGene Details Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0005515 protein binding
GO:0017048 Rho GTPase binding
GO:0019901 protein kinase binding

Biological Process:
GO:0022604 regulation of cell morphogenesis
GO:0030866 cortical actin cytoskeleton organization

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK027649 - Homo sapiens cDNA FLJ14743 fis, clone NT2RP3002701.
LF206293 - JP 2014500723-A/13796: Polycomb-Associated Non-Coding RNAs.
JD219005 - Sequence 200029 from Patent EP1572962.
BC119814 - Homo sapiens family with sequence similarity 40, member A, mRNA (cDNA clone MGC:148091 IMAGE:40108348), complete cds.
BC121793 - Homo sapiens family with sequence similarity 40, member A, mRNA (cDNA clone MGC:148090 IMAGE:40108345), complete cds.
BC094786 - Homo sapiens family with sequence similarity 40, member A, mRNA (cDNA clone MGC:104715 IMAGE:30342169), complete cds.
AK291059 - Homo sapiens cDNA FLJ77113 complete cds.
AL834196 - Homo sapiens mRNA; cDNA DKFZp761I119 (from clone DKFZp761I119).
AB051548 - Homo sapiens KIAA1761 mRNA for KIAA1761 protein.
AB463038 - Synthetic construct DNA, clone: pF1KA1761, Homo sapiens FAM40A gene for family with sequence similarity 40, member A, without stop codon, in Flexi system.
KJ895086 - Synthetic construct Homo sapiens clone ccsbBroadEn_04480 FAM40A gene, encodes complete protein.
JD129636 - Sequence 110660 from Patent EP1572962.
AK125054 - Homo sapiens cDNA FLJ43064 fis, clone BRTHA3008386.
BC019919 - Homo sapiens family with sequence similarity 40, member A, mRNA (cDNA clone IMAGE:4999548), partial cds.
LF353021 - JP 2014500723-A/160524: Polycomb-Associated Non-Coding RNAs.
LF353020 - JP 2014500723-A/160523: Polycomb-Associated Non-Coding RNAs.
BC032644 - Homo sapiens family with sequence similarity 40, member A, mRNA (cDNA clone IMAGE:5521489), partial cds.
BC040142 - Homo sapiens family with sequence similarity 40, member A, mRNA (cDNA clone IMAGE:5740070), partial cds.
JD378735 - Sequence 359759 from Patent EP1572962.
JD456895 - Sequence 437919 from Patent EP1572962.
LF353017 - JP 2014500723-A/160520: Polycomb-Associated Non-Coding RNAs.
JD245577 - Sequence 226601 from Patent EP1572962.
AK098023 - Homo sapiens cDNA FLJ40704 fis, clone THYMU2026350.
BC067239 - Homo sapiens family with sequence similarity 40, member A, mRNA (cDNA clone IMAGE:4695803).
LF353016 - JP 2014500723-A/160519: Polycomb-Associated Non-Coding RNAs.
LF353015 - JP 2014500723-A/160518: Polycomb-Associated Non-Coding RNAs.
JD174377 - Sequence 155401 from Patent EP1572962.
JD454027 - Sequence 435051 from Patent EP1572962.
JD104423 - Sequence 85447 from Patent EP1572962.
JD442881 - Sequence 423905 from Patent EP1572962.
JD326531 - Sequence 307555 from Patent EP1572962.
JD396762 - Sequence 377786 from Patent EP1572962.
JD521735 - Sequence 502759 from Patent EP1572962.
JD486739 - Sequence 467763 from Patent EP1572962.
JD226210 - Sequence 207234 from Patent EP1572962.
JD279730 - Sequence 260754 from Patent EP1572962.
JD462307 - Sequence 443331 from Patent EP1572962.
JD371839 - Sequence 352863 from Patent EP1572962.
JD073701 - Sequence 54725 from Patent EP1572962.
JD285051 - Sequence 266075 from Patent EP1572962.
MA588598 - JP 2018138019-A/160524: Polycomb-Associated Non-Coding RNAs.
MA588597 - JP 2018138019-A/160523: Polycomb-Associated Non-Coding RNAs.
MA588594 - JP 2018138019-A/160520: Polycomb-Associated Non-Coding RNAs.
MA588593 - JP 2018138019-A/160519: Polycomb-Associated Non-Coding RNAs.
MA588592 - JP 2018138019-A/160518: Polycomb-Associated Non-Coding RNAs.
MA441870 - JP 2018138019-A/13796: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000369795.1, ENST00000369795.2, ENST00000369795.3, ENST00000369795.4, ENST00000369795.5, ENST00000369795.6, ENST00000369795.7, FAM40A, KIAA1761, NM_033088, Q0V925, Q5VSL8, Q5VSL9, Q658K2, Q6ZV31, Q8N598, Q96SN2, Q9C0A2, STRP1_HUMAN, uc318hvy.1, uc318hvy.2
UCSC ID: ENST00000369795.8_4
RefSeq Accession: NM_033088.4
Protein: Q5VSL9 (aka FA40A_HUMAN)

-  Gene Model Information
  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.