Human Gene BATF2 (ENST00000435842.2) from GENCODE V44
  Description: Homo sapiens basic leucine zipper ATF-like transcription factor 2 (BATF2), transcript variant 3, mRNA. (from RefSeq NM_001300808)
Gencode Transcript: ENST00000435842.2
Gencode Gene: ENSG00000168062.10
Transcript (Including UTRs)
   Position: hg38 chr11:64,987,945-64,990,273 Size: 2,329 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg38 chr11:64,989,129-64,989,698 Size: 570 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr11:64,987,945-64,990,273)mRNA (may differ from genome)Protein (189 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Basic leucine zipper transcriptional factor ATF-like 2; Short=B-ATF-2; AltName: Full=Suppressor of AP-1 regulated by IFN; Short=SARI;
FUNCTION: AP-1 family transcription factor that controls the differentiation of lineage-specific cells in the immune system. Following infection, participates to the differentiation of CD8(+) thymic conventional dendritic cells in the immune system. Acts via the formation of a heterodimer with JUN family proteins that recognizes and binds DNA sequence 5'-TGA[CG]TCA-3' and regulates expression of target genes (By similarity).
SUBUNIT: Heterodimer; heterodimerizes with JUN family proteins (By similarity).
INTERACTION: Q15038:DAZAP2; NbExp=3; IntAct=EBI-742695, EBI-724310; P17275:JUNB; NbExp=3; IntAct=EBI-742695, EBI-748062;
SUBCELLULAR LOCATION: Nucleus (By similarity).
INDUCTION: By type I interferon. Down-regulated in most hepatocellular carcinoma tumorous tissues (at protein level).
SIMILARITY: Belongs to the bZIP family.
SIMILARITY: Contains 1 bZIP (basic-leucine zipper) domain.

-  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

-  MalaCards Disease Associations
  MalaCards Gene Search: BATF2
Diseases sorted by gene-association score: cercarial dermatitis (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 8.99 RPKM in Spleen
Total median expression: 77.73 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 -67.50195-0.346 Picture PostScript Text
3' UTR -436.501184-0.369 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
IPR004827 - bZIP

Pfam Domains:
PF00170 - bZIP transcription factor

ModBase Predicted Comparative 3D Structure on Q8N1L9
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     
Protein SequenceProtein Sequence    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein 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:0030154 cell differentiation
GO:0042832 defense response to protozoan
GO:0043011 myeloid dendritic cell differentiation

Cellular Component:
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  AK096702 - Homo sapiens cDNA FLJ39383 fis, clone PERIC2000478, weakly similar to Rattus norvegicus Jun dimerization protein 1 (jdp-1) gene.
BC011931 - Homo sapiens cDNA clone IMAGE:4304544, partial cds.
BC012330 - Homo sapiens basic leucine zipper transcription factor, ATF-like 2, mRNA (cDNA clone MGC:20410 IMAGE:4638025), complete cds.
AK092453 - Homo sapiens cDNA FLJ35134 fis, clone PLACE6009228, moderately similar to Basic leucine zipper transcriptional factor ATF-like 2.
AX747553 - Sequence 1078 from Patent EP1308459.
HM134154 - Homo sapiens suppressor of AP-1 regulated by IFN (SARI) mRNA, complete cds.
AK092761 - Homo sapiens cDNA FLJ35442 fis, clone SMINT2003128, moderately similar to Basic leucine zipper transcriptional factor ATF-like 2.
AX747712 - Sequence 1237 from Patent EP1308459.
JD211503 - Sequence 192527 from Patent EP1572962.
JD500002 - Sequence 481026 from Patent EP1572962.
JD068734 - Sequence 49758 from Patent EP1572962.
JD146231 - Sequence 127255 from Patent EP1572962.
JD109520 - Sequence 90544 from Patent EP1572962.
JD388624 - Sequence 369648 from Patent EP1572962.
JD067673 - Sequence 48697 from Patent EP1572962.
JD108538 - Sequence 89562 from Patent EP1572962.
JD339176 - Sequence 320200 from Patent EP1572962.
JD376608 - Sequence 357632 from Patent EP1572962.
JD270795 - Sequence 251819 from Patent EP1572962.
JD536729 - Sequence 517753 from Patent EP1572962.
JD349164 - Sequence 330188 from Patent EP1572962.
JD392823 - Sequence 373847 from Patent EP1572962.
JD526931 - Sequence 507955 from Patent EP1572962.
JD342620 - Sequence 323644 from Patent EP1572962.
JD208026 - Sequence 189050 from Patent EP1572962.
JD470425 - Sequence 451449 from Patent EP1572962.
DQ589261 - Homo sapiens piRNA piR-56373, complete sequence.
JD273924 - Sequence 254948 from Patent EP1572962.
JD343744 - Sequence 324768 from Patent EP1572962.
JD479140 - Sequence 460164 from Patent EP1572962.
JD265777 - Sequence 246801 from Patent EP1572962.
JD392247 - Sequence 373271 from Patent EP1572962.
AK300917 - Homo sapiens cDNA FLJ54822 complete cds.
JD063625 - Sequence 44649 from Patent EP1572962.
JD491896 - Sequence 472920 from Patent EP1572962.
JD354301 - Sequence 335325 from Patent EP1572962.
JD155247 - Sequence 136271 from Patent EP1572962.
JD117776 - Sequence 98800 from Patent EP1572962.
JD271096 - Sequence 252120 from Patent EP1572962.
JD222371 - Sequence 203395 from Patent EP1572962.
JD398004 - Sequence 379028 from Patent EP1572962.
KJ905600 - Synthetic construct Homo sapiens clone ccsbBroadEn_15228 BATF2-like gene, encodes complete protein.
AB463431 - Synthetic construct DNA, clone: pF1KB7562, Homo sapiens BATF2 gene for basic leucine zipper transcription factor, ATF-like 2, without stop codon, in Flexi system.
JD318176 - Sequence 299200 from Patent EP1572962.
JD532715 - Sequence 513739 from Patent EP1572962.
JD045395 - Sequence 26419 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: BATF2_HUMAN, D9IC56, ENST00000435842.1, NM_001300808, Q8N1L9, Q8NAF4, Q8NAL8, Q96EH4, uc001oce.1
UCSC ID: ENST00000435842.2
RefSeq Accession: NM_001300808
Protein: Q8N1L9 (aka BATF2_HUMAN)
CCDS: CCDS73317.1

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