Human Gene ARAF (ENST00000377039.2_2) from GENCODE V47lift37
  Description: A-Raf proto-oncogene, serine/threonine kinase, transcript variant 3 (from RefSeq NM_001256197.2)
Gencode Transcript: ENST00000377039.2_2
Gencode Gene: ENSG00000078061.14_8
Transcript (Including UTRs)
   Position: hg19 chrX:47,420,621-47,425,374 Size: 4,754 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chrX:47,422,367-47,424,753 Size: 2,387 Coding Exon Count: 5 

Page IndexSequence and LinksPrimersMalaCardsCTDGene 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 (chrX:47,420,621-47,425,374)mRNA (may differ from genome)Protein (186 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  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: ARAF
Diseases sorted by gene-association score: pallister-killian syndrome* (500), mycobacterium marinum (5), adenocarcinoma (4), aland island eye disease (1), adenosquamous cell lung carcinoma (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C014211 2,3,7,8-tetrachlorodibenzofuran
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • C009505 4,4'-diaminodiphenylmethane
  • C012606 4-vinyl-1-cyclohexene dioxide
  • D000082 Acetaminophen
  • D000643 Ammonium Chloride
  • D001564 Benzo(a)pyrene
  • D002251 Carbon Tetrachloride
  • D003907 Dexamethasone
          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: 27.05 RPKM in Muscle - Skeletal
Total median expression: 862.99 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 -29.7089-0.334 Picture PostScript Text
3' UTR -140.90621-0.227 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
IPR020454 - DAG/PE-bd
IPR002219 - Prot_Kinase_C-like_PE/DAG-bd
IPR003116 - Raf-like_ras-bd

Pfam Domains:
PF00130 - Phorbol esters/diacylglycerol binding domain (C1 domain)
PF02196 - Raf-like Ras-binding domain

SCOP Domains:
54236 - Ubiquitin-like
57850 - RING/U-box
57889 - Cysteine-rich domain
118310 - AN1-like Zinc finger

ModBase Predicted Comparative 3D Structure on Q59HC8
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0046872 metal ion binding

Biological Process:
GO:0007165 signal transduction
GO:0035556 intracellular signal transduction

Cellular Component:
GO:0005622 intracellular


-  Descriptions from all associated GenBank mRNAs
  X04790 - Human mRNA for A-raf-1 oncogene.
LF385310 - JP 2014500723-A/192813: Polycomb-Associated Non-Coding RNAs.
AK300975 - Homo sapiens cDNA FLJ53211 complete cds, highly similar to A-Raf proto-oncogene serine/threonine-protein kinase (EC 2.7.11.1).
AB208831 - Homo sapiens mRNA for v-raf murine sarcoma 3611 viral oncogene homolog variant protein.
AK307747 - Homo sapiens cDNA, FLJ97695.
AK297453 - Homo sapiens cDNA FLJ59256 complete cds, highly similar to A-Raf proto-oncogene serine/threonine-protein kinase (EC 2.7.11.1).
AK130043 - Homo sapiens cDNA FLJ26533 fis, clone KDN08886, highly similar to A-Raf proto-oncogene serine/threonine-protein kinase (EC 2.7.1.-).
BC002466 - Homo sapiens v-raf murine sarcoma 3611 viral oncogene homolog, mRNA (cDNA clone MGC:2356 IMAGE:3347509), complete cds.
BC007514 - Homo sapiens v-raf murine sarcoma 3611 viral oncogene homolog, mRNA (cDNA clone MGC:4512 IMAGE:2966604), complete cds.
LF213827 - JP 2014500723-A/21330: Polycomb-Associated Non-Coding RNAs.
JD322588 - Sequence 303612 from Patent EP1572962.
LF379520 - JP 2014500723-A/187023: Polycomb-Associated Non-Coding RNAs.
AB158254 - Homo sapiens ARAF1 mRNA for Ras-binding protein DA-Raf, complete cds.
AB587409 - Synthetic construct DNA, clone: pF1KB6176, Homo sapiens ARAF gene for v-raf murine sarcoma 3611 viral oncogene homolog, without stop codon, in Flexi system.
DQ892656 - Synthetic construct clone IMAGE:100005286; FLH188706.01X; RZPDo839F0373D v-raf murine sarcoma 3611 viral oncogene homolog (ARAF) gene, encodes complete protein.
DQ895896 - Synthetic construct Homo sapiens clone IMAGE:100010356; FLH188702.01L; RZPDo839F0363D v-raf murine sarcoma 3611 viral oncogene homolog (ARAF) gene, encodes complete protein.
CU675679 - Synthetic construct Homo sapiens gateway clone IMAGE:100020362 5' read ARAF mRNA.
CU677974 - Synthetic construct Homo sapiens gateway clone IMAGE:100017735 5' read ARAF mRNA.
KU177914 - Homo sapiens v-raf murine sarcoma 3611 viral oncogene-like protein isoform 1 (ARAF) mRNA, partial cds.
KU177915 - Homo sapiens v-raf murine sarcoma 3611 viral oncogene-like protein isoform 2 (ARAF) mRNA, partial cds, alternatively spliced.
KJ904419 - Synthetic construct Homo sapiens clone ccsbBroadEn_13813 ARAF gene, encodes complete protein.
KJ905145 - Synthetic construct Homo sapiens clone ccsbBroadEn_14544 ARAF gene, encodes complete protein.
KJ905688 - Synthetic construct Homo sapiens clone ccsbBroadEn_15358 ARAF gene, encodes complete protein.
BT019864 - Homo sapiens v-raf murine sarcoma 3611 viral oncogene homolog 1 mRNA, complete cds.
JD021470 - Sequence 2494 from Patent EP1572962.
LF379521 - JP 2014500723-A/187024: Polycomb-Associated Non-Coding RNAs.
LF379524 - JP 2014500723-A/187027: Polycomb-Associated Non-Coding RNAs.
MA620887 - JP 2018138019-A/192813: Polycomb-Associated Non-Coding RNAs.
MA449404 - JP 2018138019-A/21330: Polycomb-Associated Non-Coding RNAs.
MA615097 - JP 2018138019-A/187023: Polycomb-Associated Non-Coding RNAs.
MA615098 - JP 2018138019-A/187024: Polycomb-Associated Non-Coding RNAs.
MA615101 - JP 2018138019-A/187027: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000377039.1, NM_001256197, Q59HC8, Q59HC8_HUMAN, uc318niq.1, uc318niq.2
UCSC ID: ENST00000377039.2_2
RefSeq Accession: NM_001256197.2
Protein: Q59HC8

-  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.