Human Gene SLFN5 (ENST00000299977.9) from GENCODE V44
  Description: Homo sapiens schlafen family member 5 (SLFN5), transcript variant 1, mRNA. (from RefSeq NM_144975)
Gencode Transcript: ENST00000299977.9
Gencode Gene: ENSG00000166750.10
Transcript (Including UTRs)
   Position: hg38 chr17:35,243,072-35,273,655 Size: 30,584 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg38 chr17:35,258,691-35,265,888 Size: 7,198 Coding Exon Count: 4 

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 (chr17:35,243,072-35,273,655)mRNA (may differ from genome)Protein (891 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGIneXtProtOMIM
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SLFN5_HUMAN
DESCRIPTION: RecName: Full=Schlafen family member 5;
FUNCTION: May have a role in hematopoietic cell differentiation (By similarity).
SIMILARITY: Belongs to the Schlafen family.

-  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: 11.78 RPKM in Cells - Cultured fibroblasts
Total median expression: 180.27 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 -38.60112-0.345 Picture PostScript Text
3' UTR -1952.277767-0.251 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
IPR007421 - ATPase_AAA-4
IPR018647 - DUF2075

Pfam Domains:
PF04326 - Putative DNA-binding domain
PF09848 - Uncharacterized conserved protein (DUF2075)

ModBase Predicted Comparative 3D Structure on Q08AF3
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 BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0005524 ATP binding

Biological Process:
GO:0030154 cell differentiation

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AK303632 - Homo sapiens cDNA FLJ52101 complete cds.
BX647942 - Homo sapiens mRNA; cDNA DKFZp686A2051 (from clone DKFZp686A2051).
AK054668 - Homo sapiens cDNA FLJ30106 fis, clone BNGH41000190, weakly similar to Rattus norvegicus schlafen-4 (SLFN-4) mRNA.
AK303299 - Homo sapiens cDNA FLJ52100 complete cds.
BC021238 - Homo sapiens schlafen family member 5, mRNA (cDNA clone IMAGE:3636653), complete cds.
JD339466 - Sequence 320490 from Patent EP1572962.
BC125200 - Homo sapiens schlafen family member 5, mRNA (cDNA clone MGC:150611 IMAGE:40123369), complete cds.
BC125201 - Homo sapiens schlafen family member 5, mRNA (cDNA clone MGC:150612 IMAGE:40123372), complete cds.
JD373452 - Sequence 354476 from Patent EP1572962.
CU676886 - Synthetic construct Homo sapiens gateway clone IMAGE:100017043 5' read SLFN5 mRNA.
DQ896183 - Synthetic construct Homo sapiens clone IMAGE:100010643; FLH190969.01L; RZPDo839F1266D schlafen family member 5 (SLFN5) gene, encodes complete protein.
KJ906443 - Synthetic construct Homo sapiens clone ccsbBroadEn_16113 SLFN5 gene, encodes complete protein.
DQ892934 - Synthetic construct clone IMAGE:100005564; FLH190973.01X; RZPDo839F1276D schlafen family member 5 (SLFN5) gene, encodes complete protein.
KJ895722 - Synthetic construct Homo sapiens clone ccsbBroadEn_05116 SLFN5 gene, encodes complete protein.
AL832814 - Homo sapiens mRNA; cDNA DKFZp667B2124 (from clone DKFZp667B2124).
AK075116 - Homo sapiens cDNA FLJ90635 fis, clone PLACE1003644.
JD344108 - Sequence 325132 from Patent EP1572962.
JD266535 - Sequence 247559 from Patent EP1572962.
JD266536 - Sequence 247560 from Patent EP1572962.
JD498300 - Sequence 479324 from Patent EP1572962.
JD498301 - Sequence 479325 from Patent EP1572962.
JD178835 - Sequence 159859 from Patent EP1572962.
JD020900 - Sequence 1924 from Patent EP1572962.
JD030469 - Sequence 11493 from Patent EP1572962.
JD030280 - Sequence 11304 from Patent EP1572962.
JD194607 - Sequence 175631 from Patent EP1572962.
JD105922 - Sequence 86946 from Patent EP1572962.
JD517624 - Sequence 498648 from Patent EP1572962.
JD401778 - Sequence 382802 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000299977.1, ENST00000299977.2, ENST00000299977.3, ENST00000299977.4, ENST00000299977.5, ENST00000299977.6, ENST00000299977.7, ENST00000299977.8, NM_144975, Q08AF2, Q08AF3, Q8WU54, Q96A82, SLFN5_HUMAN, uc002hjf.1, uc002hjf.2, uc002hjf.3, uc002hjf.4, uc002hjf.5, uc002hjf.6
UCSC ID: ENST00000299977.9
RefSeq Accession: NM_144975
Protein: Q08AF3 (aka SLFN5_HUMAN)
CCDS: CCDS32619.1

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