Human Gene SSBP2 (ENST00000615665.5) from GENCODE V44
  Description: single stranded DNA binding protein 2 (from HGNC SSBP2)
RefSeq Summary (NM_001256732): This gene encodes a subunit of a protein complex that interacts with single-stranded DNA and is involved in the DNA damage response and maintenance of genome stability. The encoded protein may also play a role in telomere repair. A variant of this gene may be associated with survival in human glioblastoma patients. [provided by RefSeq, Sep 2016].
Gencode Transcript: ENST00000615665.5
Gencode Gene: ENSG00000145687.17
Transcript (Including UTRs)
   Position: hg38 chr5:81,412,804-81,751,097 Size: 338,294 Total Exon Count: 17 Strand: -
Coding Region
   Position: hg38 chr5:81,420,504-81,751,042 Size: 330,539 Coding Exon Count: 17 

Page IndexSequence and LinksPrimersCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureOther SpeciesmRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:81,412,804-81,751,097)mRNA (may differ from genome)Protein (369 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGeneCardsHGNCMalacards
MGIPubMedUniProtKBWikipedia

-  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
  • D013749 Tetrachlorodibenzodioxin
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone
  • C548651 2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester
  • C009505 4,4'-diaminodiphenylmethane
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D015127 9,10-Dimethyl-1,2-benzanthracene
  • C547126 AZM551248
  • D016604 Aflatoxin B1
  • D000393 Air Pollutants
          more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 7.77 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 221.80 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 -14.6055-0.265 Picture PostScript Text
3' UTR -2140.507700-0.278 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.

-  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    

-  Descriptions from all associated GenBank mRNAs
  AF077048 - Homo sapiens single strand DNA-binding protein mRNA, complete cds.
AK294864 - Homo sapiens cDNA FLJ52865 complete cds, highly similar to Single-stranded DNA-binding protein 2.
AF161465 - Homo sapiens HSPC116 mRNA, complete cds.
CR936787 - Homo sapiens mRNA; cDNA DKFZp686F03273 (from clone DKFZp686F03273).
AK074537 - Homo sapiens cDNA FLJ90056 fis, clone HEMBA1003072, weakly similar to Gallus gallus single-strand DNA-binding protein csdp mRNA.
AL080076 - Homo sapiens mRNA; cDNA DKFZp564C0362 (from clone DKFZp564C0362).
AK297494 - Homo sapiens cDNA FLJ52868 complete cds, highly similar to Single-stranded DNA-binding protein 2.
BC017020 - Homo sapiens single-stranded DNA binding protein 2, mRNA (cDNA clone MGC:8958 IMAGE:3913337), complete cds.
AK293544 - Homo sapiens cDNA FLJ52881 complete cds, highly similar to Single-stranded DNA-binding protein 2.
AK299858 - Homo sapiens cDNA FLJ50198 complete cds, highly similar to Single-stranded DNA-binding protein 2.
AK312337 - Homo sapiens cDNA, FLJ92656, highly similar to Homo sapiens single-stranded DNA binding protein 2 (SSBP2), mRNA.
KJ893421 - Synthetic construct Homo sapiens clone ccsbBroadEn_02815 SSBP2 gene, encodes complete protein.
DQ891620 - Synthetic construct clone IMAGE:100004250; FLH178702.01X; RZPDo839G02128D single-stranded DNA binding protein 2 (SSBP2) gene, encodes complete protein.
DQ894812 - Synthetic construct Homo sapiens clone IMAGE:100009272; FLH178698.01L; RZPDo839G02127D single-stranded DNA binding protein 2 (SSBP2) gene, encodes complete protein.
EU176592 - Synthetic construct Homo sapiens clone IMAGE:100011583; FLH263627.01L; RZPDo839A03254D single-stranded DNA binding protein 2 (SSBP2) gene, encodes complete protein.
EU831646 - Synthetic construct Homo sapiens clone HAIB:100066675; DKFZo007F0919 single-stranded DNA binding protein 2 protein (SSBP2) gene, encodes complete protein.
AB528651 - Synthetic construct DNA, clone: pF1KB6541, Homo sapiens SSBP2 gene for single-stranded DNA binding protein 2, without stop codon, in Flexi system.
EU831730 - Synthetic construct Homo sapiens clone HAIB:100066759; DKFZo003F0920 single-stranded DNA binding protein 2 protein (SSBP2) gene, encodes complete protein.
CU677799 - Synthetic construct Homo sapiens gateway clone IMAGE:100017106 5' read SSBP2 mRNA.
JD242943 - Sequence 223967 from Patent EP1572962.
JD347339 - Sequence 328363 from Patent EP1572962.
JD511527 - Sequence 492551 from Patent EP1572962.
JD286689 - Sequence 267713 from Patent EP1572962.
JD511528 - Sequence 492552 from Patent EP1572962.
JD286690 - Sequence 267714 from Patent EP1572962.
JD071032 - Sequence 52056 from Patent EP1572962.
JD319485 - Sequence 300509 from Patent EP1572962.
JD319484 - Sequence 300508 from Patent EP1572962.
JD340699 - Sequence 321723 from Patent EP1572962.
JD354776 - Sequence 335800 from Patent EP1572962.
JD509940 - Sequence 490964 from Patent EP1572962.
JD566283 - Sequence 547307 from Patent EP1572962.
JD052588 - Sequence 33612 from Patent EP1572962.
JD491282 - Sequence 472306 from Patent EP1572962.
JD509324 - Sequence 490348 from Patent EP1572962.
JD392371 - Sequence 373395 from Patent EP1572962.
JD255310 - Sequence 236334 from Patent EP1572962.
JD323725 - Sequence 304749 from Patent EP1572962.
JD263266 - Sequence 244290 from Patent EP1572962.
JD053708 - Sequence 34732 from Patent EP1572962.
JD501162 - Sequence 482186 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A0A087X159, ENST00000615665.1, ENST00000615665.2, ENST00000615665.3, ENST00000615665.4, NR_174560, uc003khp.1, uc003khp.2, uc003khp.3, uc003khp.4, uc003khp.5
UCSC ID: ENST00000615665.5
RefSeq Accession: NM_001256732

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