Human Gene SPIN1 (ENST00000375859.4) from GENCODE V44
  Description: Homo sapiens spindlin 1 (SPIN1), mRNA. (from RefSeq NM_006717)
Gencode Transcript: ENST00000375859.4
Gencode Gene: ENSG00000106723.17
Transcript (Including UTRs)
   Position: hg38 chr9:88,388,444-88,478,694 Size: 90,251 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg38 chr9:88,426,540-88,475,277 Size: 48,738 Coding Exon Count: 5 

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 (chr9:88,388,444-88,478,694)mRNA (may differ from genome)Protein (262 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SPIN1_HUMAN
DESCRIPTION: RecName: Full=Spindlin-1; AltName: Full=Ovarian cancer-related protein;
FUNCTION: May play a role in cell-cycle regulation during the transition from gamete to embryo (By similarity).
SUBUNIT: Homodimer; may form higher-order oligomers.
SUBCELLULAR LOCATION: Nucleus.
PTM: Phosphorylated during oocyte meiotic maturation (By similarity).
SIMILARITY: Belongs to the SPIN/STSY family.
SEQUENCE CAUTION: Sequence=AAD43035.1; Type=Frameshift; Positions=21; Sequence=AAG38112.1; Type=Erroneous initiation; Sequence=AAG48367.1; Type=Erroneous initiation; Sequence=CAB66653.1; Type=Erroneous termination; Positions=171; Note=Translated as Glu; Sequence=CAG38515.1; Type=Erroneous termination; Positions=171; Note=Translated as Glu;

-  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: 47.66 RPKM in Cervix - Endocervix
Total median expression: 1126.04 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 -85.70253-0.339 Picture PostScript Text
3' UTR -893.603417-0.262 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
IPR003671 - Spin_Ssty

Pfam Domains:
PF02513 - Spin/Ssty Family

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2NS2 - X-ray MuPIT 4H75 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9Y657
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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0035064 methylated histone binding

Biological Process:
GO:0006325 chromatin organization
GO:0007049 cell cycle
GO:0007275 multicellular organism development
GO:0007276 gamete generation
GO:0009303 rRNA transcription
GO:0016055 Wnt signaling pathway
GO:0030177 positive regulation of Wnt signaling pathway
GO:0045893 positive regulation of transcription, DNA-templated
GO:0051321 meiotic cell cycle

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005819 spindle
GO:0005829 cytosol
GO:0031965 nuclear membrane


-  Descriptions from all associated GenBank mRNAs
  AK289691 - Homo sapiens cDNA FLJ78312 complete cds, highly similar to Homo sapiens spindlin, mRNA.
BC013571 - Homo sapiens spindlin 1, mRNA (cDNA clone IMAGE:3906173).
AL136719 - Homo sapiens mRNA; cDNA DKFZp566G0346 (from clone DKFZp566G0346).
AK092017 - Homo sapiens cDNA FLJ34698 fis, clone MESAN2002147, highly similar to Spindlin-1.
AX747313 - Sequence 838 from Patent EP1308459.
AF106682 - Homo sapiens spindlin mRNA, complete cds.
AF087864 - Homo sapiens Spin mRNA, complete cds.
AK290009 - Homo sapiens cDNA FLJ78729 complete cds.
AK315854 - Homo sapiens cDNA, FLJ79503 complete cds, highly similar to Spindlin-1.
BC114515 - Homo sapiens spindlin 1, mRNA (cDNA clone MGC:138618 IMAGE:40031486), complete cds.
BC114565 - Homo sapiens spindlin 1, mRNA (cDNA clone MGC:138619 IMAGE:40031487), complete cds.
AF317228 - Homo sapiens spindlin 1 mRNA, complete cds.
CR533484 - Homo sapiens full open reading frame cDNA clone RZPDo834A1017D for gene SPIN, spindlin; complete cds, incl. stopcodon.
AB528570 - Synthetic construct DNA, clone: pF1KB3077, Homo sapiens SPIN1 gene for spindlin 1, without stop codon, in Flexi system.
CU680616 - Synthetic construct Homo sapiens gateway clone IMAGE:100018659 5' read SPIN1 mRNA.
DQ896800 - Synthetic construct Homo sapiens clone IMAGE:100011260; FLH164262.01L; RZPDo839E06161D spindlin (SPIN) gene, encodes complete protein.
KJ893170 - Synthetic construct Homo sapiens clone ccsbBroadEn_02564 SPIN1 gene, encodes complete protein.
BT007314 - Homo sapiens spindlin mRNA, complete cds.
DQ893536 - Synthetic construct clone IMAGE:100006166; FLH164266.01X; RZPDo839E06162D spindlin (SPIN) gene, encodes complete protein.
LF206085 - JP 2014500723-A/13588: Polycomb-Associated Non-Coding RNAs.
MA441662 - JP 2018138019-A/13588: Polycomb-Associated Non-Coding RNAs.
JD498508 - Sequence 479532 from Patent EP1572962.
JD278210 - Sequence 259234 from Patent EP1572962.
JD299786 - Sequence 280810 from Patent EP1572962.
JD289237 - Sequence 270261 from Patent EP1572962.
LF351202 - JP 2014500723-A/158705: Polycomb-Associated Non-Coding RNAs.
MA586779 - JP 2018138019-A/158705: Polycomb-Associated Non-Coding RNAs.
DQ600397 - Homo sapiens piRNA piR-38463, complete sequence.
LF351203 - JP 2014500723-A/158706: Polycomb-Associated Non-Coding RNAs.
MA586780 - JP 2018138019-A/158706: Polycomb-Associated Non-Coding RNAs.
JD399869 - Sequence 380893 from Patent EP1572962.
JD298050 - Sequence 279074 from Patent EP1572962.
JD041107 - Sequence 22131 from Patent EP1572962.
JD509860 - Sequence 490884 from Patent EP1572962.
JD509294 - Sequence 490318 from Patent EP1572962.
AK027044 - Homo sapiens cDNA: FLJ23391 fis, clone HEP17320.
AJ420427 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1658819.
AK027055 - Homo sapiens cDNA: FLJ23402 fis, clone HEP18853.
AK024590 - Homo sapiens cDNA: FLJ20937 fis, clone ADSE01564.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K0X6, B3KRQ4, ENST00000375859.1, ENST00000375859.2, ENST00000375859.3, NM_006717, OCR, Q7KZJ8, Q9GZT2, Q9H0N7, Q9Y657, SPIN, SPIN1_HUMAN, uc004apy.1, uc004apy.2, uc004apy.3, uc004apy.4, uc004apy.5
UCSC ID: ENST00000375859.4
RefSeq Accession: NM_006717
Protein: Q9Y657 (aka SPIN1_HUMAN)
CCDS: CCDS43843.1

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