Human Gene SLTM (ENST00000380516.7_8) from GENCODE V47lift37
  Description: SAFB like transcription modulator, transcript variant 1 (from RefSeq NM_024755.4)
Gencode Transcript: ENST00000380516.7_8
Gencode Gene: ENSG00000137776.17_12
Transcript (Including UTRs)
   Position: hg19 chr15:59,171,249-59,225,878 Size: 54,630 Total Exon Count: 21 Strand: -
Coding Region
   Position: hg19 chr15:59,172,198-59,225,764 Size: 53,567 Coding Exon Count: 21 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:59,171,249-59,225,878)mRNA (may differ from genome)Protein (1034 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SLTM_HUMAN
DESCRIPTION: RecName: Full=SAFB-like transcription modulator; AltName: Full=Modulator of estrogen-induced transcription;
FUNCTION: When overexpressed, acts as a general inhibitor of transcription that eventually leads to apoptosis (By similarity).
SUBCELLULAR LOCATION: Nucleus (By similarity). Note=Detected in punctate structures (By similarity).
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR (By similarity).
SIMILARITY: Contains 1 RRM (RNA recognition motif) domain.
SIMILARITY: Contains 1 SAP domain.
SEQUENCE CAUTION: Sequence=AAI08657.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=BAB14502.1; Type=Erroneous initiation; Sequence=BAB14971.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAB14971.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;

-  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

+  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: 33.51 RPKM in Thyroid
Total median expression: 1137.41 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 -63.10114-0.554 Picture PostScript Text
3' UTR -236.00949-0.249 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
IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom
IPR003034 - SAP_DNA-bd

Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF02037 - SAP domain
PF13893 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

SCOP Domains:
68906 - SAP domain
54928 - RNA-binding domain, RBD

ModBase Predicted Comparative 3D Structure on Q9NWH9
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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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGDEnsembl WormBase 
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003690 double-stranded DNA binding
GO:0003723 RNA binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006915 apoptotic process
GO:0050684 regulation of mRNA processing

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0016604 nuclear body


-  Descriptions from all associated GenBank mRNAs
  BC046119 - Homo sapiens SAFB-like, transcription modulator, mRNA (cDNA clone IMAGE:6196843), partial cds.
AK023275 - Homo sapiens cDNA FLJ13213 fis, clone NT2RP4001126, weakly similar to TRICHOHYALIN.
JD344589 - Sequence 325613 from Patent EP1572962.
JD386243 - Sequence 367267 from Patent EP1572962.
JD206526 - Sequence 187550 from Patent EP1572962.
JD562388 - Sequence 543412 from Patent EP1572962.
JD185895 - Sequence 166919 from Patent EP1572962.
JD359359 - Sequence 340383 from Patent EP1572962.
BC040120 - Homo sapiens SAFB-like, transcription modulator, mRNA (cDNA clone IMAGE:5110622), with apparent retained intron.
AK055195 - Homo sapiens cDNA FLJ30633 fis, clone CTONG2002418, highly similar to Homo sapiens modulator of estrogen induced transcription, transcript variant 1, mRNA.
AL834297 - Homo sapiens mRNA; cDNA DKFZp762G052 (from clone DKFZp762G052).
BC014944 - Homo sapiens SAFB-like, transcription modulator, mRNA (cDNA clone IMAGE:4864860), partial cds.
JD113045 - Sequence 94069 from Patent EP1572962.
JD147430 - Sequence 128454 from Patent EP1572962.
AK291423 - Homo sapiens cDNA FLJ78261 complete cds.
JD513869 - Sequence 494893 from Patent EP1572962.
JD563023 - Sequence 544047 from Patent EP1572962.
JD180377 - Sequence 161401 from Patent EP1572962.
BC140851 - Homo sapiens SAFB-like, transcription modulator, mRNA (cDNA clone MGC:176528 IMAGE:9021719), complete cds.
JD553082 - Sequence 534106 from Patent EP1572962.
JD305202 - Sequence 286226 from Patent EP1572962.
JD173367 - Sequence 154391 from Patent EP1572962.
JD180557 - Sequence 161581 from Patent EP1572962.
AK024710 - Homo sapiens cDNA: FLJ21057 fis, clone CAS00705.
AK000867 - Homo sapiens cDNA FLJ10005 fis, clone HEMBA1000156.
AK131242 - Homo sapiens cDNA FLJ16159 fis, clone BRCAN2002854.
BC108656 - Homo sapiens SAFB-like, transcription modulator, mRNA (cDNA clone IMAGE:4520738), partial cds.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K5V8, B2RTX3, ENST00000380516.1, ENST00000380516.2, ENST00000380516.3, ENST00000380516.4, ENST00000380516.5, ENST00000380516.6, MET, NM_024755, Q2VPK7, Q52MB3, Q658J7, Q6ZNF2, Q86TK6, Q9H7C3, Q9H8U9, Q9NWH9, SLTM_HUMAN, uc318pqg.1, uc318pqg.2
UCSC ID: ENST00000380516.7_8
RefSeq Accession: NM_024755.4
Protein: Q9NWH9 (aka SLTM_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.