Human Gene ATP9B (uc002lmx.3) Description and Page Index
  Description: Homo sapiens ATPase, class II, type 9B (ATP9B), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr18:76,829,397-77,138,282 Size: 308,886 Total Exon Count: 30 Strand: +
Coding Region
   Position: hg19 chr18:76,829,411-77,137,383 Size: 307,973 Coding Exon Count: 30 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:76,829,397-77,138,282)mRNA (may differ from genome)Protein (1147 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedReactomeStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ATP9B_HUMAN
DESCRIPTION: RecName: Full=Probable phospholipid-transporting ATPase IIB; EC=3.6.3.1; AltName: Full=ATPase class II type 9B;
CATALYTIC ACTIVITY: ATP + H(2)O + phospholipid(In) = ADP + phosphate + phospholipid(Out).
SUBCELLULAR LOCATION: Golgi apparatus, trans-Golgi network membrane; Multi-pass membrane protein. Note=Efficient exit from the endoplasmic reticulum does not require TMEM30A, nor TMEM30B.
SIMILARITY: Belongs to the cation transport ATPase (P-type) (TC 3.A.3) family. Type IV subfamily.
CAUTION: It is uncertain whether Met-1 or Met-53 is the initiator.

-  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: 6.81 RPKM in Testis
Total median expression: 159.01 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
3' UTR -329.49899-0.367 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
IPR023306 - ATPase_cation_domN
IPR008250 - ATPase_P-typ_ATPase-assoc-dom
IPR023300 - ATPase_P-typ_cyto_domA
IPR023299 - ATPase_P-typ_cyto_domN
IPR001757 - ATPase_P-typ_ion-transptr
IPR018303 - ATPase_P-typ_P_site
IPR006539 - ATPase_P-typ_Plipid-transl
IPR005834 - Dehalogen-like_hydro
IPR023214 - HAD-like_dom

Pfam Domains:
PF00122 - E1-E2 ATPase
PF00702 - haloacid dehalogenase-like hydrolase
PF13246 - Cation transport ATPase (P-type)
PF16209 - Phospholipid-translocating ATPase N-terminal
PF16212 - Phospholipid-translocating P-type ATPase C-terminal

SCOP Domains:
47266 - 4-helical cytokines
81653 - Calcium ATPase, transduction domain A
56784 - HAD-like
81660 - Metal cation-transporting ATPase, ATP-binding domain N

ModBase Predicted Comparative 3D Structure on O43861
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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     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0000287 magnesium ion binding
GO:0004012 phospholipid-translocating ATPase activity
GO:0005524 ATP binding
GO:0016787 hydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER
GO:0006897 endocytosis
GO:0015914 phospholipid transport
GO:0045332 phospholipid translocation

Cellular Component:
GO:0005768 endosome
GO:0005794 Golgi apparatus
GO:0005802 trans-Golgi network
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC036473 - Homo sapiens ATPase, class II, type 9B, mRNA (cDNA clone IMAGE:5259227), with apparent retained intron.
AK308291 - Homo sapiens cDNA, FLJ98239.
BC022535 - Homo sapiens ATPase, class II, type 9B, mRNA (cDNA clone IMAGE:4816928), with apparent retained intron.
BC125220 - Homo sapiens ATPase, class II, type 9B, mRNA (cDNA clone MGC:150651 IMAGE:40123959), complete cds.
BC125219 - Homo sapiens ATPase, class II, type 9B, mRNA (cDNA clone MGC:150650 IMAGE:40123958), complete cds.
LF385265 - JP 2014500723-A/192768: Polycomb-Associated Non-Coding RNAs.
AK093704 - Homo sapiens cDNA FLJ36385 fis, clone THYMU2008727, highly similar to Probable phospholipid-transporting ATPase IIB (EC 3.6.3.1).
AX748269 - Sequence 1794 from Patent EP1308459.
AK097757 - Homo sapiens cDNA FLJ40438 fis, clone TESTI2039776, highly similar to POTENTIAL PHOSPHOLIPID-TRANSPORTING ATPASE IIB (EC 3.6.1.-).
AB373110 - Homo sapiens hMMR1 mRNA for macrophage MHC receptor 1, complete cds.
BX537860 - Homo sapiens mRNA; cDNA DKFZp686H2093 (from clone DKFZp686H2093).
BX648948 - Homo sapiens mRNA; cDNA DKFZp686F0648 (from clone DKFZp686F0648).
MA620842 - JP 2018138019-A/192768: Polycomb-Associated Non-Coding RNAs.
AK295981 - Homo sapiens cDNA FLJ61123 complete cds, highly similar to Homo sapiens ATPase, Class II, type 9B (ATP9B), mRNA.
BC053561 - Homo sapiens ATPase, class II, type 9B, mRNA (cDNA clone IMAGE:6164343), complete cds.
CU690988 - Synthetic construct Homo sapiens gateway clone IMAGE:100021508 5' read ATP9B mRNA.
KJ906492 - Synthetic construct Homo sapiens clone ccsbBroadEn_16162 ATP9B gene, encodes complete protein.
LF344095 - JP 2014500723-A/151598: Polycomb-Associated Non-Coding RNAs.
LF344093 - JP 2014500723-A/151596: Polycomb-Associated Non-Coding RNAs.
LF344087 - JP 2014500723-A/151590: Polycomb-Associated Non-Coding RNAs.
MA579672 - JP 2018138019-A/151598: Polycomb-Associated Non-Coding RNAs.
MA579670 - JP 2018138019-A/151596: Polycomb-Associated Non-Coding RNAs.
MA579664 - JP 2018138019-A/151590: Polycomb-Associated Non-Coding RNAs.
LF344055 - JP 2014500723-A/151558: Polycomb-Associated Non-Coding RNAs.
LF344053 - JP 2014500723-A/151556: Polycomb-Associated Non-Coding RNAs.
LF344052 - JP 2014500723-A/151555: Polycomb-Associated Non-Coding RNAs.
MA579632 - JP 2018138019-A/151558: Polycomb-Associated Non-Coding RNAs.
MA579630 - JP 2018138019-A/151556: Polycomb-Associated Non-Coding RNAs.
MA579629 - JP 2018138019-A/151555: Polycomb-Associated Non-Coding RNAs.
LF344047 - JP 2014500723-A/151550: Polycomb-Associated Non-Coding RNAs.
LF344046 - JP 2014500723-A/151549: Polycomb-Associated Non-Coding RNAs.
AK127634 - Homo sapiens cDNA FLJ45732 fis, clone HSYRA2004550, highly similar to Potential phospholipid-transporting ATPase IIB (EC 3.6.3.13).
LF344045 - JP 2014500723-A/151548: Polycomb-Associated Non-Coding RNAs.
U78978 - Homo sapiens putative ATPase mRNA, partial cds.
BC037546 - Homo sapiens ATPase, class II, type 9B, mRNA (cDNA clone IMAGE:5206457), with apparent retained intron.
AJ006268 - Homo sapiens mRNA for putative ATPase, partial.
LF344043 - JP 2014500723-A/151546: Polycomb-Associated Non-Coding RNAs.
LF344042 - JP 2014500723-A/151545: Polycomb-Associated Non-Coding RNAs.
AK130499 - Homo sapiens cDNA FLJ26989 fis, clone SLV03395.
LF344041 - JP 2014500723-A/151544: Polycomb-Associated Non-Coding RNAs.
AL096735 - Homo sapiens mRNA; cDNA DKFZp434A042 (from clone DKFZp434A042).
LF344039 - JP 2014500723-A/151542: Polycomb-Associated Non-Coding RNAs.
JD106634 - Sequence 87658 from Patent EP1572962.
JD218567 - Sequence 199591 from Patent EP1572962.
JD382988 - Sequence 364012 from Patent EP1572962.
JD393967 - Sequence 374991 from Patent EP1572962.
JD057188 - Sequence 38212 from Patent EP1572962.
JD455424 - Sequence 436448 from Patent EP1572962.
JD156967 - Sequence 137991 from Patent EP1572962.
JD156966 - Sequence 137990 from Patent EP1572962.
JD455307 - Sequence 436331 from Patent EP1572962.
JD457595 - Sequence 438619 from Patent EP1572962.
JD156965 - Sequence 137989 from Patent EP1572962.
JD455307 - Sequence 436331 from Patent EP1572962.
JD368854 - Sequence 349878 from Patent EP1572962.
JD232913 - Sequence 213937 from Patent EP1572962.
JD513685 - Sequence 494709 from Patent EP1572962.
JD354536 - Sequence 335560 from Patent EP1572962.
JD538723 - Sequence 519747 from Patent EP1572962.
JD156966 - Sequence 137990 from Patent EP1572962.
JD156967 - Sequence 137991 from Patent EP1572962.
JD455307 - Sequence 436331 from Patent EP1572962.
JD074410 - Sequence 55434 from Patent EP1572962.
JD152613 - Sequence 133637 from Patent EP1572962.
JD412230 - Sequence 393254 from Patent EP1572962.
JD084643 - Sequence 65667 from Patent EP1572962.
MA579624 - JP 2018138019-A/151550: Polycomb-Associated Non-Coding RNAs.
MA579623 - JP 2018138019-A/151549: Polycomb-Associated Non-Coding RNAs.
MA579622 - JP 2018138019-A/151548: Polycomb-Associated Non-Coding RNAs.
MA579620 - JP 2018138019-A/151546: Polycomb-Associated Non-Coding RNAs.
MA579619 - JP 2018138019-A/151545: Polycomb-Associated Non-Coding RNAs.
MA579618 - JP 2018138019-A/151544: Polycomb-Associated Non-Coding RNAs.
MA579616 - JP 2018138019-A/151542: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O43861 (Reactome details) participates in the following event(s):

R-HSA-939763 P-type ATPases type IV transport external-facing APLs to internal side of the plasma membrane
R-HSA-947591 P-type ATPases type IV transport internal-facing APLs to external side of the plasma membrane
R-HSA-936837 Ion transport by P-type ATPases
R-HSA-983712 Ion channel transport
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: ATP9B_HUMAN, ATPIIB, HUSSY-20, NEO1L, NM_198531, NP_940933, O43861, O60872, Q08AD8, Q08AD9
UCSC ID: uc002lmx.3
RefSeq Accession: NM_198531
Protein: O43861 (aka ATP9B_HUMAN or AT9B_HUMAN)
CCDS: CCDS12014.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_198531.3
exon count: 30CDS single in 3' UTR: no RNA size: 4378
ORF size: 3444CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 7088.00frame shift in genome: no % Coverage: 99.52
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
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.