Human Gene ANKRD13B (uc002hei.3)
  Description: Homo sapiens ankyrin repeat domain 13B (ANKRD13B), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr17:27,920,527-27,941,779 Size: 21,253 Total Exon Count: 15 Strand: +
Coding Region
   Position: hg19 chr17:27,920,640-27,940,600 Size: 19,961 Coding Exon Count: 15 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:27,920,527-27,941,779)mRNA (may differ from genome)Protein (626 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: AN13B_HUMAN
DESCRIPTION: RecName: Full=Ankyrin repeat domain-containing protein 13B;
SIMILARITY: Contains 2 ANK repeats.
SIMILARITY: Contains 3 UIM (ubiquitin-interacting motif) repeats.

-  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


-  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: 35.49 RPKM in Brain - Cerebellum
Total median expression: 345.10 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 -64.80113-0.573 Picture PostScript Text
3' UTR -493.001179-0.418 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
IPR021832 - ANKRD13
IPR002110 - Ankyrin_rpt
IPR020683 - Ankyrin_rpt-contain_dom
IPR003903 - Ubiquitin-int_motif

Pfam Domains:
PF00023 - Ankyrin repeat
PF02809 - Ubiquitin interaction motif
PF11904 - GPCR-chaperone
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 Q86YJ7
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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0005737 cytoplasm
GO:0005768 endosome
GO:0005769 early endosome
GO:0005770 late endosome
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  LF209201 - JP 2014500723-A/16704: Polycomb-Associated Non-Coding RNAs.
BC062597 - Homo sapiens ankyrin repeat domain 13B, mRNA (cDNA clone IMAGE:5247577), partial cds.
MA444778 - JP 2018138019-A/16704: Polycomb-Associated Non-Coding RNAs.
LF212411 - JP 2014500723-A/19914: Polycomb-Associated Non-Coding RNAs.
AK092673 - Homo sapiens cDNA FLJ35354 fis, clone PUAEN2000080, highly similar to Ankyrin repeat domain-containing protein 13B.
AX747664 - Sequence 1189 from Patent EP1308459.
AK097716 - Homo sapiens cDNA FLJ40397 fis, clone TESTI2037002.
AK098421 - Homo sapiens cDNA FLJ25555 fis, clone JTH02535.
AK000425 - Homo sapiens cDNA FLJ20418 fis, clone KAT02427.
JD405126 - Sequence 386150 from Patent EP1572962.
JD535147 - Sequence 516171 from Patent EP1572962.
JD157952 - Sequence 138976 from Patent EP1572962.
JD229533 - Sequence 210557 from Patent EP1572962.
JD117884 - Sequence 98908 from Patent EP1572962.
JD225181 - Sequence 206205 from Patent EP1572962.
JD110791 - Sequence 91815 from Patent EP1572962.
JD329317 - Sequence 310341 from Patent EP1572962.
JD151783 - Sequence 132807 from Patent EP1572962.
JD115566 - Sequence 96590 from Patent EP1572962.
JD257931 - Sequence 238955 from Patent EP1572962.
JD503644 - Sequence 484668 from Patent EP1572962.
JD128348 - Sequence 109372 from Patent EP1572962.
JD080951 - Sequence 61975 from Patent EP1572962.
JD214849 - Sequence 195873 from Patent EP1572962.
MA447988 - JP 2018138019-A/19914: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AN13B_HUMAN, NM_152345, NP_689558, Q86YJ7, Q8N7S9
UCSC ID: uc002hei.3
RefSeq Accession: NM_152345
Protein: Q86YJ7 (aka AN13B_HUMAN)
CCDS: CCDS11251.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_152345.4
exon count: 15CDS single in 3' UTR: no RNA size: 3203
ORF size: 1881CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3948.00frame shift in genome: no % Coverage: 99.06
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 1042# 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.