Human Gene ANKRD42 (uc001ozz.1) Description and Page Index
  Description: Homo sapiens ankyrin repeat domain 42 (ANKRD42), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr11:82,905,291-82,960,013 Size: 54,723 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr11:82,905,713-82,959,043 Size: 53,331 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr11:82,905,291-82,960,013)mRNA (may differ from genome)Protein (389 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
PubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Ankyrin repeat domain-containing protein 42;
SIMILARITY: Contains 9 ANK repeats.

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

+  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: 15.96 RPKM in Testis
Total median expression: 142.13 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 -172.20422-0.408 Picture PostScript Text
3' UTR -216.15970-0.223 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
IPR002110 - Ankyrin_rpt
IPR020683 - Ankyrin_rpt-contain_dom
IPR018247 - EF_Hand_1_Ca_BS

Pfam Domains:
PF00023 - Ankyrin repeat
PF12796 - Ankyrin repeats (3 copies)
PF13606 - Ankyrin repeat
PF13637 - Ankyrin repeats (many copies)
PF13857 - Ankyrin repeats (many copies)

SCOP Domains:
48403 - Ankyrin repeat

ModBase Predicted Comparative 3D Structure on Q8N9B4
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 Details     
Gene Sorter     

-  Descriptions from all associated GenBank mRNAs
  DQ508934 - Homo sapiens SARP3 mRNA, partial cds.
BC045621 - Homo sapiens ankyrin repeat domain 42, mRNA (cDNA clone MGC:39524 IMAGE:4813915), complete cds.
AK310765 - Homo sapiens cDNA, FLJ17807.
EF041819 - Homo sapiens several ankyrin repeat protein transcript variant 2 mRNA, partial cds, alternatively spliced.
BX648690 - Homo sapiens mRNA; cDNA DKFZp686K0838 (from clone DKFZp686K0838).
DQ508815 - Homo sapiens SARP mRNA, partial cds, alternatively spliced.
JD073003 - Sequence 54027 from Patent EP1572962.
AK095193 - Homo sapiens cDNA FLJ37874 fis, clone BRSSN2018731, weakly similar to ANKYRIN 1.
JD201169 - Sequence 182193 from Patent EP1572962.
JD424978 - Sequence 406002 from Patent EP1572962.
JD064760 - Sequence 45784 from Patent EP1572962.
JD543562 - Sequence 524586 from Patent EP1572962.
BC171752 - Homo sapiens cDNA clone IMAGE:9053253.
KJ904186 - Synthetic construct Homo sapiens clone ccsbBroadEn_13580 ANKRD42 gene, encodes complete protein.
BC062729 - Homo sapiens ankyrin repeat domain 42, mRNA (cDNA clone IMAGE:6622286), partial cds.
JD522529 - Sequence 503553 from Patent EP1572962.
JD202289 - Sequence 183313 from Patent EP1572962.
JD268595 - Sequence 249619 from Patent EP1572962.
JD316177 - Sequence 297201 from Patent EP1572962.
JD502944 - Sequence 483968 from Patent EP1572962.
JD359516 - Sequence 340540 from Patent EP1572962.
JD402738 - Sequence 383762 from Patent EP1572962.
JD555458 - Sequence 536482 from Patent EP1572962.
JD413065 - Sequence 394089 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ANR42_HUMAN, NM_182603, NP_872409, Q49A49, Q8N9B4
UCSC ID: uc001ozz.1
RefSeq Accession: NM_182603
Protein: Q8N9B4 (aka ANR42_HUMAN)
CCDS: CCDS8265.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_182603.2
exon count: 10CDS single in 3' UTR: no RNA size: 2562
ORF size: 1170CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2540.00frame shift in genome: no % Coverage: 100.00
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: 884# 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.