Human Gene SPNS1 (uc010vdi.1) Description and Page Index
  Description: Homo sapiens spinster homolog 1 (Drosophila) (SPNS1), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr16:28,986,096-28,996,838 Size: 10,743 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr16:28,986,473-28,995,620 Size: 9,148 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:28,986,096-28,996,838)mRNA (may differ from genome)Protein (528 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SPNS1_HUMAN
DESCRIPTION: RecName: Full=Protein spinster homolog 1; AltName: Full=HSpin1; AltName: Full=Spinster-like protein 1;
FUNCTION: Sphingolipid transporter (By similarity). May be involved in necrotic or autophagic cell death.
SUBUNIT: Interacts with BCL2 and BCL2L1.
INTERACTION: Q07817:BCL2L1; NbExp=3; IntAct=EBI-1386527, EBI-78035;
SUBCELLULAR LOCATION: Mitochondrion inner membrane; Multi-pass membrane protein. Note=Colocalizes with SDHB.
SIMILARITY: Belongs to the major facilitator (TC 2.A.1) superfamily. Spinster (TC 2.A.1.49) family.
SEQUENCE CAUTION: Sequence=AAQ15259.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAQ15259.1; Type=Frameshift; Positions=97;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -64.30140-0.459 Picture PostScript Text
3' UTR -644.501218-0.529 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
IPR011701 - MFS
IPR020846 - MFS_dom
IPR016196 - MFS_dom_general_subst_transpt

Pfam Domains:
PF00083 - Sugar (and other) transporter
PF07690 - Major Facilitator Superfamily

SCOP Domains:
103473 - MFS general substrate transporter

ModBase Predicted Comparative 3D Structure on Q9H2V7
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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 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:0046624 sphingolipid transporter activity

Biological Process:
GO:0003376 sphingosine-1-phosphate signaling pathway
GO:0006869 lipid transport
GO:0040011 locomotion
GO:0055085 transmembrane transport

Cellular Component:
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005765 lysosomal membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031982 vesicle


-  Descriptions from all associated GenBank mRNAs
  BC038961 - Homo sapiens spinster homolog 1 (Drosophila), mRNA (cDNA clone MGC:47562 IMAGE:6053095), complete cds.
AK095677 - Homo sapiens cDNA FLJ38358 fis, clone FEBRA2000210.
AK289787 - Homo sapiens cDNA FLJ78727 complete cds.
BC065235 - Homo sapiens spinster homolog 1 (Drosophila), mRNA (cDNA clone MGC:70841 IMAGE:6161778), complete cds.
AF370423 - Homo sapiens PP2030 mRNA, complete cds.
BC047741 - Homo sapiens spinster homolog 1 (Drosophila), mRNA (cDNA clone MGC:54108 IMAGE:5757339), complete cds.
AB209402 - Homo sapiens mRNA for spinster variant protein.
AL390215 - Homo sapiens mRNA; cDNA DKFZp727E151 (from clone DKFZp727E151).
AF212371 - Homo sapiens spinster-like protein mRNA, complete cds.
BC008325 - Homo sapiens spinster homolog 1 (Drosophila), mRNA (cDNA clone MGC:15767 IMAGE:3501826), complete cds.
AM392778 - Synthetic construct Homo sapiens clone IMAGE:100002393 for hypothetical protein (SPIN1 gene).
AM393748 - Synthetic construct Homo sapiens clone IMAGE:100002431 for hypothetical protein (SPIN1 gene).
AB528362 - Synthetic construct DNA, clone: pF1KB0485, Homo sapiens SPNS1 gene for spinster homolog 1, without stop codon, in Flexi system.
CU678917 - Synthetic construct Homo sapiens gateway clone IMAGE:100017390 5' read SPNS1 mRNA.
KJ899746 - Synthetic construct Homo sapiens clone ccsbBroadEn_09140 SPNS1 gene, encodes complete protein.
BC006156 - Homo sapiens spinster homolog 1 (Drosophila), mRNA (cDNA clone IMAGE:3627317), partial cds.
JD477441 - Sequence 458465 from Patent EP1572962.
JD525102 - Sequence 506126 from Patent EP1572962.
BC011563 - Homo sapiens linker for activation of T cells, mRNA (cDNA clone MGC:20145 IMAGE:4644259), complete cds.
AK307342 - Homo sapiens cDNA, FLJ97290.
AJ223280 - Homo sapiens mRNA for tyrosine-phosphorylated protein of 36 kD (pp36) (LAT gene).
AF036906 - Homo sapiens linker for activation of T cells (LAT) mRNA, alternatively spliced form, complete cds.
JD477729 - Sequence 458753 from Patent EP1572962.
AF036905 - Homo sapiens linker for activation of T cells (LAT) mRNA, complete cds.
JD221795 - Sequence 202819 from Patent EP1572962.
KJ893590 - Synthetic construct Homo sapiens clone ccsbBroadEn_02984 LAT gene, encodes complete protein.
FN432831 - Homo sapiens mRNA for linker for activation of T-cells family member 1 (LAT gene), transcript variant Ins27.
FN432832 - Homo sapiens mRNA for linker for activation of T-cells family member 1 (LAT gene), transcript variant Del3.
FN432833 - Homo sapiens mRNA for linker for activation of T-cells family member 1 (LAT gene), transcript variant Del30.
FN432834 - Homo sapiens mRNA for linker for activation of T-cells family member 1 (LAT gene), transcript variant Del116.
JD027469 - Sequence 8493 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B5MDM9, NM_001142448, NP_001135922, PP20300, Q6P182, Q71RB5, Q7L541, Q86VU7, Q8N953, Q8TCS5, Q9BRN5, Q9H2V7, SPIN1, SPNS1_HUMAN
UCSC ID: uc010vdi.1
RefSeq Accession: NM_001142448
Protein: Q9H2V7 (aka SPNS1_HUMAN)
CCDS: CCDS10646.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001142448.1
exon count: 13CDS single in 3' UTR: no RNA size: 1993
ORF size: 1587CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3544.00frame shift in genome: no % Coverage: 99.15
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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-  Methods, Credits, and Use Restrictions
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