Human Gene ARAF (uc004dic.2) Description and Page Index
  Description: Homo sapiens v-raf murine sarcoma 3611 viral oncogene homolog (ARAF), transcript variant 2, mRNA.
RefSeq Summary (NM_001256196): This proto-oncogene belongs to the RAF subfamily of the Ser/Thr protein kinase family, and maybe involved in cell growth and development. Alternatively spliced transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jan 2012].
Transcript (Including UTRs)
   Position: hg19 chrX:47,420,499-47,431,320 Size: 10,822 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg19 chrX:47,422,367-47,430,856 Size: 8,490 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:47,420,499-47,431,320)mRNA (may differ from genome)Protein (609 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
Stanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: Q96II5_HUMAN
DESCRIPTION: SubName: Full=ARAF protein;
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
SIMILARITY: Belongs to the protein kinase superfamily.
SIMILARITY: Contains 1 protein kinase domain.

-  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
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -76.80211-0.364 Picture PostScript Text
3' UTR -168.50464-0.363 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
IPR011009 - Kinase-like_dom
IPR002219 - Prot_Kinase_C-like_PE/DAG-bd
IPR000719 - Prot_kinase_cat_dom
IPR017441 - Protein_kinase_ATP_BS
IPR003116 - Raf-like_ras-bd
IPR001245 - Ser-Thr/Tyr_kinase_cat_dom
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF00069 - Protein kinase domain
PF00130 - Phorbol esters/diacylglycerol binding domain (C1 domain)
PF02196 - Raf-like Ras-binding domain
PF07714 - Protein tyrosine kinase
PF14531 - Kinase-like

SCOP Domains:
56112 - Protein kinase-like (PK-like)
54236 - Ubiquitin-like
57889 - Cysteine-rich domain

ModBase Predicted Comparative 3D Structure on Q96II5
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004672 protein kinase activity
GO:0004674 protein serine/threonine kinase activity
GO:0004709 MAP kinase kinase kinase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity
GO:0046872 metal ion binding

Biological Process:
GO:0000165 MAPK cascade
GO:0000186 activation of MAPKK activity
GO:0006468 protein phosphorylation
GO:0007165 signal transduction
GO:0016310 phosphorylation
GO:0020021 immortalization of host cell
GO:0035556 intracellular signal transduction

Cellular Component:
GO:0005739 mitochondrion
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  LF385311 - JP 2014500723-A/192814: Polycomb-Associated Non-Coding RNAs.
MA620888 - JP 2018138019-A/192814: Polycomb-Associated Non-Coding RNAs.
JD058244 - Sequence 39268 from Patent EP1572962.
X04790 - Human mRNA for A-raf-1 oncogene.
LF385310 - JP 2014500723-A/192813: Polycomb-Associated Non-Coding RNAs.
JD175203 - Sequence 156227 from Patent EP1572962.
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.
M13829 - Human putative raf related protein (pks/a-raf) mRNA, partial cds.
LF379526 - JP 2014500723-A/187029: Polycomb-Associated Non-Coding RNAs.
AF052136 - Homo sapiens clone 23692 mRNA sequence.
JD500607 - Sequence 481631 from Patent EP1572962.
JD090492 - Sequence 71516 from Patent EP1572962.
JD330186 - Sequence 311210 from Patent EP1572962.
JD335792 - Sequence 316816 from Patent EP1572962.
JD251520 - Sequence 232544 from Patent EP1572962.
JD101457 - Sequence 82481 from Patent EP1572962.
JD565758 - Sequence 546782 from Patent EP1572962.
LF379529 - JP 2014500723-A/187032: Polycomb-Associated Non-Coding RNAs.
JD286970 - Sequence 267994 from Patent EP1572962.
JD511902 - Sequence 492926 from Patent EP1572962.
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.
MA615103 - JP 2018138019-A/187029: Polycomb-Associated Non-Coding RNAs.
MA615106 - JP 2018138019-A/187032: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04012 - ErbB signaling pathway
hsa04270 - Vascular smooth muscle contraction
hsa04650 - Natural killer cell mediated cytotoxicity
hsa04720 - Long-term potentiation
hsa04730 - Long-term depression
hsa04810 - Regulation of actin cytoskeleton
hsa04910 - Insulin signaling pathway
hsa04914 - Progesterone-mediated oocyte maturation
hsa05200 - Pathways in cancer
hsa05210 - Colorectal cancer
hsa05211 - Renal cell carcinoma
hsa05212 - Pancreatic cancer
hsa05213 - Endometrial cancer
hsa05214 - Glioma
hsa05215 - Prostate cancer
hsa05218 - Melanoma
hsa05219 - Bladder cancer
hsa05220 - Chronic myeloid leukemia
hsa05221 - Acute myeloid leukemia
hsa05223 - Non-small cell lung cancer

-  Other Names for This Gene
  Alternate Gene Symbols: A6NIT1, NM_001256196, NP_001243125, Q96II5, Q96II5_HUMAN, uc004dic.1
UCSC ID: uc004dic.2
RefSeq Accession: NM_001256196
Protein: Q96II5 CCDS: CCDS35232.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001256196.1
exon count: 16CDS single in 3' UTR: no RNA size: 2571
ORF size: 1830CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3747.00frame shift in genome: no % Coverage: 97.43
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 2
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.