Human Gene DFFB (uc001alb.3)
  Description: Homo sapiens DNA fragmentation factor, 40kDa, beta polypeptide (caspase-activated DNase) (DFFB), mRNA.
RefSeq Summary (NM_004402): Apoptosis is a cell death process that removes toxic and/or useless cells during mammalian development. The apoptotic process is accompanied by shrinkage and fragmentation of the cells and nuclei and degradation of the chromosomal DNA into nucleosomal units. DNA fragmentation factor (DFF) is a heterodimeric protein of 40-kD (DFFB) and 45-kD (DFFA) subunits. DFFA is the substrate for caspase-3 and triggers DNA fragmentation during apoptosis. DFF becomes activated when DFFA is cleaved by caspase-3. The cleaved fragments of DFFA dissociate from DFFB, the active component of DFF. DFFB has been found to trigger both DNA fragmentation and chromatin condensation during apoptosis. Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene but the biological validity of some of these variants has not been determined. [provided by RefSeq, Sep 2013].
Transcript (Including UTRs)
   Position: hg19 chr1:3,773,845-3,801,993 Size: 28,149 Total Exon Count: 7 Strand: +


Page IndexSequence and LinksPrimersGenetic AssociationsCTDRNA-Seq Expression
Microarray ExpressionOther SpeciesmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:3,773,845-3,801,993)mRNA (may differ from genome)No protein
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSEnsemblExonPrimerGeneNetworkH-INVHGNC
LynxPubMedTreefamWikipedia

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): DFFB
CDC HuGE Published Literature: DFFB

-  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: 8.98 RPKM in Brain - Cerebellum
Total median expression: 150.52 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.

-  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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  BC048797 - Homo sapiens DNA fragmentation factor, 40kDa, beta polypeptide (caspase-activated DNase), mRNA (cDNA clone MGC:51917 IMAGE:5204996), complete cds.
BC032827 - Homo sapiens DNA fragmentation factor, 40kDa, beta polypeptide (caspase-activated DNase), mRNA (cDNA clone IMAGE:4820856), complete cds.
AB028911 - Homo sapiens DFF40 beta mRNA for DNA fragmentation factor 40 kDa subunit beta, complete cds.
AB028912 - Homo sapiens DFF40 gamma mRNA for DNA fragmentation factor 40 kDa subunit gamma, complete cds.
AB028913 - Homo sapiens DFF40 delta mRNA for DNA fragmentation factor 40 kDa subunit delta, complete cds.
AF064019 - Homo sapiens DNA fragmentation factor 40 kDa subunit (DFF40) mRNA, complete cds.
AK027141 - Homo sapiens cDNA: FLJ23488 fis, clone LNG00589, highly similar to AF064019 Homo sapiens DNA fragmentation factor 40 kDa subunit (DFF40) mRNA.
AK303065 - Homo sapiens cDNA FLJ50316 complete cds, highly similar to DNA fragmentation factor subunit beta (EC 3.-.-.-).
AK290877 - Homo sapiens cDNA FLJ76791 complete cds, highly similar to Homo sapiens DNA fragmentation factor, 40kDa, beta polypeptide (caspase-activated DNase) (DFFB), transcript variant 1, mRNA.
JD477590 - Sequence 458614 from Patent EP1572962.
AK309316 - Homo sapiens cDNA, FLJ99357.
JD203623 - Sequence 184647 from Patent EP1572962.
JD056255 - Sequence 37279 from Patent EP1572962.
JD195113 - Sequence 176137 from Patent EP1572962.
JD136841 - Sequence 117865 from Patent EP1572962.
AF409060 - Homo sapiens DNA fragmentation factor B truncated form I (DFFB) mRNA, complete cds, alternatively spliced.
AF409061 - Homo sapiens DNA fragmentation factor B truncated form II (DFFB) mRNA, complete cds, alternatively spliced.
AF409062 - Homo sapiens DNA fragmentation factor B truncated form III (DFFB) mRNA, complete cds, alternatively spliced.
KJ896701 - Synthetic construct Homo sapiens clone ccsbBroadEn_06095 DFFB gene, encodes complete protein.
AB013918 - Homo sapiens mRNA for CAD, complete cds.
AF039210 - Homo sapiens caspase-activated nuclease mRNA, complete cds.
AY438267 - Homo sapiens c-truncated caspase-activated DNase mRNA, complete cds; aberrantly spliced.
AY438268 - Homo sapiens c-truncated caspase-activated DNase mRNA, complete cds; aberrantly spliced.
JD299069 - Sequence 280093 from Patent EP1572962.
JD280607 - Sequence 261631 from Patent EP1572962.
JD507789 - Sequence 488813 from Patent EP1572962.
JD364357 - Sequence 345381 from Patent EP1572962.
JD513924 - Sequence 494948 from Patent EP1572962.
JD513925 - Sequence 494949 from Patent EP1572962.
JD069743 - Sequence 50767 from Patent EP1572962.
JD414835 - Sequence 395859 from Patent EP1572962.
JD414840 - Sequence 395864 from Patent EP1572962.
JD251849 - Sequence 232873 from Patent EP1572962.
JD120572 - Sequence 101596 from Patent EP1572962.
JD379687 - Sequence 360711 from Patent EP1572962.
JD379688 - Sequence 360712 from Patent EP1572962.
JD379690 - Sequence 360714 from Patent EP1572962.
JD311821 - Sequence 292845 from Patent EP1572962.
JD311822 - Sequence 292846 from Patent EP1572962.
JD081619 - Sequence 62643 from Patent EP1572962.
JD081618 - Sequence 62642 from Patent EP1572962.
JD438367 - Sequence 419391 from Patent EP1572962.
JD223659 - Sequence 204683 from Patent EP1572962.
JD133766 - Sequence 114790 from Patent EP1572962.
JD240979 - Sequence 222003 from Patent EP1572962.
JD234567 - Sequence 215591 from Patent EP1572962.
JD545744 - Sequence 526768 from Patent EP1572962.
JD355717 - Sequence 336741 from Patent EP1572962.
JD355958 - Sequence 336982 from Patent EP1572962.
JD483266 - Sequence 464290 from Patent EP1572962.
JD240899 - Sequence 221923 from Patent EP1572962.
JD367253 - Sequence 348277 from Patent EP1572962.
JD325954 - Sequence 306978 from Patent EP1572962.
JD153342 - Sequence 134366 from Patent EP1572962.
JD527726 - Sequence 508750 from Patent EP1572962.
JD161705 - Sequence 142729 from Patent EP1572962.
JD523542 - Sequence 504566 from Patent EP1572962.
JD262073 - Sequence 243097 from Patent EP1572962.
JD165226 - Sequence 146250 from Patent EP1572962.
JD560950 - Sequence 541974 from Patent EP1572962.
JD542913 - Sequence 523937 from Patent EP1572962.
JD547760 - Sequence 528784 from Patent EP1572962.
JD213062 - Sequence 194086 from Patent EP1572962.
JD407504 - Sequence 388528 from Patent EP1572962.
JD095289 - Sequence 76313 from Patent EP1572962.
JD374566 - Sequence 355590 from Patent EP1572962.
JD489243 - Sequence 470267 from Patent EP1572962.
JD489244 - Sequence 470268 from Patent EP1572962.
JD072220 - Sequence 53244 from Patent EP1572962.
JD505144 - Sequence 486168 from Patent EP1572962.
JD099343 - Sequence 80367 from Patent EP1572962.
JD242577 - Sequence 223601 from Patent EP1572962.
JD242576 - Sequence 223600 from Patent EP1572962.
JD374853 - Sequence 355877 from Patent EP1572962.
JD157399 - Sequence 138423 from Patent EP1572962.
JD115949 - Sequence 96973 from Patent EP1572962.
JD106917 - Sequence 87941 from Patent EP1572962.
JD075193 - Sequence 56217 from Patent EP1572962.
JD377503 - Sequence 358527 from Patent EP1572962.
JD088199 - Sequence 69223 from Patent EP1572962.
JD532121 - Sequence 513145 from Patent EP1572962.
JD334502 - Sequence 315526 from Patent EP1572962.
JD428181 - Sequence 409205 from Patent EP1572962.
JD268667 - Sequence 249691 from Patent EP1572962.
JD513119 - Sequence 494143 from Patent EP1572962.
JD298698 - Sequence 279722 from Patent EP1572962.
JD352875 - Sequence 333899 from Patent EP1572962.
JD542205 - Sequence 523229 from Patent EP1572962.
JD424818 - Sequence 405842 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04210 - Apoptosis

BioCarta from NCI Cancer Genome Anatomy Project
h_setPathway - Granzyme A mediated Apoptosis Pathway
h_caspasePathway - Caspase Cascade in Apoptosis
h_mitochondriaPathway - Role of Mitochondria in Apoptotic Signaling
h_deathPathway - Induction of apoptosis through DR3 and DR4/5 Death Receptors
h_tnfr1Pathway - TNFR1 Signaling Pathway
h_fasPathway - FAS signaling pathway ( CD95 )
h_DNAfragmentPathway - Apoptotic DNA fragmentation and tissue homeostasis
h_HivnefPathway - HIV-I Nef: negative effector of Fas and TNF

-  Other Names for This Gene
  Alternate Gene Symbols: AF409061
UCSC ID: uc001alb.3
RefSeq Accession: NM_004402

-  Gene Model Information
 
category: nearCoding nonsense-mediated-decay: no RNA accession: AF409061.1
exon count: 7CDS single in 3' UTR: no RNA size: 1043
ORF size: 0CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 343.00frame shift in genome: no % Coverage: 100.00
has start codon: no stop codon in genome: no # of Alignments: 1
has end codon: no 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.