Human Gene GTSF1 (uc001sgb.3)
  Description: Homo sapiens gametocyte specific factor 1 (GTSF1), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr12:54,849,736-54,867,386 Size: 17,651 Total Exon Count: 9 Strand: -
Coding Region
   Position: hg19 chr12:54,852,893-54,865,032 Size: 12,140 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:54,849,736-54,867,386)mRNA (may differ from genome)Protein (167 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GTSF1_HUMAN
DESCRIPTION: RecName: Full=Gametocyte-specific factor 1; AltName: Full=Protein FAM112B;
SIMILARITY: Belongs to the UPF0224 (FAM112) family.
SIMILARITY: Contains 1 CHHC-type zinc finger.

-  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: 68.04 RPKM in Testis
Total median expression: 73.54 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 -25.3086-0.294 Picture PostScript Text
3' UTR -29.20222-0.132 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
IPR022776 - TRM13/UPF0224_CHHC_Znf_dom
IPR007917 - UPF0224

Pfam Domains:
PF05253 - U11-48K-like CHHC zinc finger

ModBase Predicted Comparative 3D Structure on Q8WW33
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 orthologGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details  Gene Details  
Gene Sorter  Gene Sorter  
  EnsemblFlyBase  
  Protein SequenceProtein Sequence  
  AlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0046872 metal ion binding

Biological Process:
GO:0007283 spermatogenesis
GO:0030154 cell differentiation

Cellular Component:
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK057504 - Homo sapiens cDNA FLJ32942 fis, clone TESTI2007814, highly similar to Protein FAM112B.
BC105587 - Homo sapiens gametocyte specific factor 1, mRNA (cDNA clone MGC:111187 IMAGE:4697882), complete cds.
BC021179 - Homo sapiens gametocyte specific factor 1, mRNA (cDNA clone MGC:33248 IMAGE:4823487), complete cds.
AK098819 - Homo sapiens cDNA FLJ25953 fis, clone TST01594.
JD239590 - Sequence 220614 from Patent EP1572962.
KJ900075 - Synthetic construct Homo sapiens clone ccsbBroadEn_09469 GTSF1 gene, encodes complete protein.
JD357645 - Sequence 338669 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KQ60, FAM112B, GTSF1_HUMAN, NM_144594, NP_653195, Q0VGM4, Q8N778, Q8WW33
UCSC ID: uc001sgb.3
RefSeq Accession: NM_144594
Protein: Q8WW33 (aka GTSF1_HUMAN)
CCDS: CCDS8881.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_144594.2
exon count: 9CDS single in 3' UTR: no RNA size: 822
ORF size: 504CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1113.00frame shift in genome: no % Coverage: 98.78
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
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.