Human Gene SH3YL1 (ENST00000356150.10) from GENCODE V44
  Description: Homo sapiens SH3 and SYLF domain containing 1 (SH3YL1), transcript variant 1, mRNA. (from RefSeq NM_015677)
Gencode Transcript: ENST00000356150.10
Gencode Gene: ENSG00000035115.22
Transcript (Including UTRs)
   Position: hg38 chr2:218,144-264,032 Size: 45,889 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg38 chr2:218,811-263,984 Size: 45,174 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:218,144-264,032)mRNA (may differ from genome)Protein (342 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SH3Y1_HUMAN
DESCRIPTION: RecName: Full=SH3 domain-containing YSC84-like protein 1;
SUBUNIT: Interacts with SH3D19 (By similarity).
SIMILARITY: Belongs to the SH3YL1 family.
SIMILARITY: Contains 1 SH3 domain.

-  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           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.90 RPKM in Pancreas
Total median expression: 202.49 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -22.0048-0.458 Picture PostScript Text
3' UTR -117.40667-0.176 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
IPR001452 - SH3_domain
IPR007461 - Ysc84_actin-binding

Pfam Domains:
PF04366 - Las17-binding protein actin regulator
PF00018 - SH3 domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2D8H - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q96HL8
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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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0019902 phosphatase binding
GO:0035091 phosphatidylinositol binding

Biological Process:
GO:0006661 phosphatidylinositol biosynthetic process
GO:1900027 regulation of ruffle assembly

Cellular Component:
GO:0032587 ruffle membrane


-  Descriptions from all associated GenBank mRNAs
  BC008374 - Homo sapiens SH3 domain containing, Ysc84-like 1 (S. cerevisiae), mRNA (cDNA clone MGC:12274 IMAGE:3996066), complete cds.
BC008375 - Homo sapiens SH3 domain containing, Ysc84-like 1 (S. cerevisiae), mRNA (cDNA clone MGC:12275 IMAGE:3996120), complete cds.
AK026586 - Homo sapiens cDNA: FLJ22933 fis, clone KAT07516.
BC043403 - Homo sapiens SH3 domain containing, Ysc84-like 1 (S. cerevisiae), mRNA (cDNA clone IMAGE:6045172), partial cds.
AK026507 - Homo sapiens cDNA: FLJ22854 fis, clone KAT00983.
AK292312 - Homo sapiens cDNA FLJ78625 complete cds.
BC043234 - Homo sapiens SH3 domain containing, Ysc84-like 1 (S. cerevisiae), mRNA (cDNA clone IMAGE:5295710).
AK055801 - Homo sapiens cDNA FLJ31239 fis, clone KIDNE2004879.
BC013286 - Homo sapiens SH3 domain containing, Ysc84-like 1 (S. cerevisiae), mRNA (cDNA clone IMAGE:3683474), with apparent retained intron.
BC030778 - Homo sapiens SH3 domain containing, Ysc84-like 1 (S. cerevisiae), mRNA (cDNA clone IMAGE:4825726), complete cds.
BC034974 - Homo sapiens SH3 domain containing, Ysc84-like 1 (S. cerevisiae), mRNA (cDNA clone IMAGE:4825727), complete cds.
AK123829 - Homo sapiens cDNA FLJ41835 fis, clone NT2RI3001279, highly similar to Mus musculus mRNA for Sh3yl1.
AL050373 - Homo sapiens mRNA; cDNA DKFZp586F1318 (from clone DKFZp586F1318).
JD562578 - Sequence 543602 from Patent EP1572962.
JD528364 - Sequence 509388 from Patent EP1572962.
JD348360 - Sequence 329384 from Patent EP1572962.
JD510711 - Sequence 491735 from Patent EP1572962.
AK096440 - Homo sapiens cDNA FLJ39121 fis, clone NTONG2006709, highly similar to Mus musculus mRNA for Sh3yl1.
CR457361 - Homo sapiens full open reading frame cDNA clone RZPDo834F1213D for gene SH3YL1, SH3 domain containing, Ysc84-like 1 (S. cerevisiae); complete cds, incl. stopcodon.
KJ906119 - Synthetic construct Homo sapiens clone ccsbBroadEn_15789 SH3YL1 gene, encodes complete protein.
HQ447798 - Synthetic construct Homo sapiens clone IMAGE:100071141; CCSB005551_01 SH3 domain containing, Ysc84-like 1 (S. cerevisiae) (SH3YL1) gene, encodes complete protein.
KJ893579 - Synthetic construct Homo sapiens clone ccsbBroadEn_02973 SH3YL1 gene, encodes complete protein.
EU831405 - Synthetic construct Homo sapiens clone HAIB:100066434; DKFZo008A0317 SH3 domain containing, Ysc84-like 1 (S. cerevisiae) protein (SH3YL1) gene, encodes complete protein.
EU831406 - Synthetic construct Homo sapiens clone HAIB:100066435; DKFZo008A0417 SH3 domain containing, Ysc84-like 1 (S. cerevisiae) protein (SH3YL1) gene, encodes complete protein.
EU831497 - Synthetic construct Homo sapiens clone HAIB:100066526; DKFZo004A0318 SH3 domain containing, Ysc84-like 1 (S. cerevisiae) protein (SH3YL1) gene, encodes complete protein.
EU831498 - Synthetic construct Homo sapiens clone HAIB:100066527; DKFZo004A0418 SH3 domain containing, Ysc84-like 1 (S. cerevisiae) protein (SH3YL1) gene, encodes complete protein.
AB587414 - Synthetic construct DNA, clone: pF1KB6428, Homo sapiens SH3YL1 gene for SH3 domain containing, Ysc84-like 1, without stop codon, in Flexi system.
CU678935 - Synthetic construct Homo sapiens gateway clone IMAGE:100018926 5' read SH3YL1 mRNA.
CU678933 - Synthetic construct Homo sapiens gateway clone IMAGE:100019022 5' read SH3YL1 mRNA.
KJ906118 - Synthetic construct Homo sapiens clone ccsbBroadEn_15788 SH3YL1 gene, encodes complete protein.
JD382568 - Sequence 363592 from Patent EP1572962.
JD190103 - Sequence 171127 from Patent EP1572962.
JD269793 - Sequence 250817 from Patent EP1572962.
JD156904 - Sequence 137928 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K8E7, B7WNJ4, B7WPL6, ENST00000356150.1, ENST00000356150.2, ENST00000356150.3, ENST00000356150.4, ENST00000356150.5, ENST00000356150.6, ENST00000356150.7, ENST00000356150.8, ENST00000356150.9, NM_015677, Q8NEL2, Q96HL8, Q9H5X4, Q9Y3V5, SH3Y1_HUMAN, uc002qvx.1, uc002qvx.2, uc002qvx.3, uc002qvx.4, uc002qvx.5, uc002qvx.6
UCSC ID: ENST00000356150.10
RefSeq Accession: NM_015677
Protein: Q96HL8 (aka SH3Y1_HUMAN)
CCDS: CCDS42646.2

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.