Human Gene BTBD9 (uc010jwx.3)
  Description: Homo sapiens BTB (POZ) domain containing 9 (BTBD9), transcript variant 2, mRNA.
RefSeq Summary (NM_001099272): This locus encodes a BTB/POZ domain-containing protein. This domain is known to be involved in protein-protein interactions. Polymorphisms at this locus have been reported to be associated with susceptibility to Restless Legs Syndrome and may also be associated with Tourette Syndrome. Alternatively spliced transcript variants have been described. [provided by RefSeq, Aug 2011].
Transcript (Including UTRs)
   Position: hg19 chr6:38,136,227-38,607,924 Size: 471,698 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr6:38,142,761-38,565,870 Size: 423,110 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:38,136,227-38,607,924)mRNA (may differ from genome)Protein (612 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMalacards
MGIneXtProtOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: BTBD9_HUMAN
DESCRIPTION: RecName: Full=BTB/POZ domain-containing protein 9;
TISSUE SPECIFICITY: Highly expressed in kidney and moderately expressed in all other adult and fetal tissues. Moderately expressed in all specific brain regions examined.
DISEASE: Genetic variations in BTBD9 may be associated with susceptibility to restless legs syndrome type 6 (RLS6) [MIM:611185]; also called periodic limb movements in sleep. Restless legs syndrome (RLS) is a neurologic disorder characterized by an uncontrollable urge to move the legs during periods of rest. The majority of patients with RLS also have periodic limb movements in sleep, which are characterized by involuntary, highly stereotypical, regularly occurring limb movements that occur during sleep.
SIMILARITY: Contains 1 BACK (BTB/Kelch associated) domain.
SIMILARITY: Contains 1 BTB (POZ) domain.
SEQUENCE CAUTION: Sequence=BAB67773.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): BTBD9
CDC HuGE Published Literature: BTBD9
Positive Disease Associations: Basophils , restless legs syndrome
Related Studies:
  1. Basophils
    , , . [PubMed 0]
  2. Basophils
    , , . [PubMed 0]
  3. restless legs syndrome
    Stefansson ,et al. 2007, A genetic risk factor for periodic limb movements in sleep, The New England journal of medicine 2007 357- 7 : 639-47. [PubMed 17634447]
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: BTBD9
Diseases sorted by gene-association score: restless legs syndrome (50), restless legs syndrome 6 (13), gilles de la tourette syndrome (6)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           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: 8.59 RPKM in Brain - Cortex
Total median expression: 154.86 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 -191.80376-0.510 Picture PostScript Text
3' UTR -2665.296534-0.408 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
IPR011705 - BACK
IPR000210 - BTB/POZ-like
IPR011333 - BTB/POZ_fold
IPR013069 - BTB_POZ
IPR000421 - Coagulation_fac_5/8-C_type_dom
IPR008979 - Galactose-bd-like

Pfam Domains:
PF00651 - BTB/POZ domain
PF00754 - F5/8 type C domain
PF07707 - BTB And C-terminal Kelch

SCOP Domains:
49785 - Galactose-binding domain-like
54695 - POZ domain

ModBase Predicted Comparative 3D Structure on Q96Q07
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 BrowserGenome BrowserGenome BrowserNo ortholog
Gene Details  Gene DetailsGene Details 
Gene Sorter  Gene SorterGene Sorter 
  EnsemblFlyBaseWormBase 
  Protein SequenceProtein SequenceProtein Sequence 
  AlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0031625 ubiquitin protein ligase binding

Biological Process:
GO:0007616 long-term memory
GO:0008344 adult locomotory behavior
GO:0030162 regulation of proteolysis
GO:0042428 serotonin metabolic process
GO:0042748 circadian sleep/wake cycle, non-REM sleep
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0048512 circadian behavior
GO:0050804 modulation of synaptic transmission
GO:0050951 sensory perception of temperature stimulus
GO:0060586 multicellular organismal iron ion homeostasis
GO:1900242 regulation of synaptic vesicle endocytosis

Cellular Component:
GO:0005737 cytoplasm
GO:0019005 SCF ubiquitin ligase complex


-  Descriptions from all associated GenBank mRNAs
  BX537534 - Homo sapiens mRNA; cDNA DKFZp686L0186 (from clone DKFZp686L0186).
AB067467 - Homo sapiens mRNA for KIAA1880 protein.
AK090930 - Homo sapiens cDNA FLJ33611 fis, clone BRAMY2016002.
AX746689 - Sequence 214 from Patent EP1308459.
AK057507 - Homo sapiens cDNA FLJ32945 fis, clone TESTI2007867, weakly similar to RING CANAL PROTEIN.
BC101354 - Homo sapiens BTB (POZ) domain containing 9, mRNA (cDNA clone MGC:120517 IMAGE:40025568), complete cds.
BC101355 - Homo sapiens BTB (POZ) domain containing 9, mRNA (cDNA clone MGC:120518 IMAGE:40025569), complete cds.
BC101356 - Homo sapiens cDNA clone IMAGE:40025570.
BC101357 - Homo sapiens BTB (POZ) domain containing 9, mRNA (cDNA clone MGC:120520 IMAGE:40025572), complete cds.
KJ895265 - Synthetic construct Homo sapiens clone ccsbBroadEn_04659 BTBD9 gene, encodes complete protein.
AB385512 - Synthetic construct DNA, clone: pF1KA1880, Homo sapiens BTBD9 gene for BTB/POZ domain-containing protein 9, complete cds, without stop codon, in Flexi system.
BC035667 - Homo sapiens, clone IMAGE:5728734, mRNA.
AL157476 - Homo sapiens mRNA; cDNA DKFZp761C082 (from clone DKFZp761C082).
AK126242 - Homo sapiens cDNA FLJ44254 fis, clone TKIDN2009641.
JD300231 - Sequence 281255 from Patent EP1572962.
JD294511 - Sequence 275535 from Patent EP1572962.
JD122701 - Sequence 103725 from Patent EP1572962.
DQ581857 - Homo sapiens piRNA piR-49969, complete sequence.
JD232436 - Sequence 213460 from Patent EP1572962.
DQ599044 - Homo sapiens piRNA piR-37110, complete sequence.
JD401175 - Sequence 382199 from Patent EP1572962.
JD055503 - Sequence 36527 from Patent EP1572962.
JD390419 - Sequence 371443 from Patent EP1572962.
JD193868 - Sequence 174892 from Patent EP1572962.
DQ573536 - Homo sapiens piRNA piR-41648, complete sequence.
JD399510 - Sequence 380534 from Patent EP1572962.
JD304806 - Sequence 285830 from Patent EP1572962.
JD278993 - Sequence 260017 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: BTBD9_HUMAN, KIAA1880, NM_001099272, NP_689946, Q494V9, Q494W1, Q96M00, Q96Q07
UCSC ID: uc010jwx.3
RefSeq Accession: NM_001099272
Protein: Q96Q07 (aka BTBD9_HUMAN or BTB9_HUMAN)
CCDS: CCDS47418.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001099272.1
exon count: 11CDS single in 3' UTR: no RNA size: 8767
ORF size: 1839CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3833.00frame shift in genome: no % Coverage: 99.79
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: 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.