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ATP2C2 ATPase secretory pathway Ca2+ transporting 2 [ Homo sapiens (human) ]

Gene ID: 9914, updated on 3-May-2020

Summary

Official Symbol
ATP2C2provided by HGNC
Official Full Name
ATPase secretory pathway Ca2+ transporting 2provided by HGNC
Primary source
HGNC:HGNC:29103
See related
Ensembl:ENSG00000064270 MIM:613082
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SPCA2
Expression
Biased expression in colon (RPKM 16.5), skin (RPKM 9.9) and 12 other tissues See more
Orthologs

Genomic context

See ATP2C2 in Genome Data Viewer
Location:
16q24.1
Exon count:
32
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (84368523..84465777)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (84402129..84497793)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene RNA, 5S ribosomal pseudogene 433 Neighboring gene WAP four-disulfide core domain 1 Neighboring gene ATP2C2 antisense RNA 1 Neighboring gene MTOR associated protein, eak-7 homolog Neighboring gene coactosin like F-actin binding protein 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Copy number response

Description
Copy number response
Triplosensitivity

No evidence available (Last evaluated (2018-09-17)

ClinGen Genome Curation Page
Haploinsufficency

No evidence available (Last evaluated (2018-09-17)

ClinGen Genome Curation PagePubMed

NHGRI GWAS Catalog

Description
Genome-wide association analysis of blood biomarkers in chronic obstructive pulmonary disease.
NHGRI GWA Catalog
Molecular genetics of adult ADHD: converging evidence from genome-wide association and extended pedigree linkage studies.
NHGRI GWA Catalog

Pathways from PubChem

General gene information

Markers

Homology

Clone Names

  • KIAA0703, DKFZp686H22230

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
ATPase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
calcium-transporting ATPase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
manganese-transporting ATPase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
proton-exporting ATPase activity, phosphorylative mechanism IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
calcium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular calcium ion homeostasis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ion transmembrane transport TAS
Traceable Author Statement
more info
 
mammary gland epithelium development IEA
Inferred from Electronic Annotation
more info
 
manganese ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
manganese ion transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of calcium ion import IEA
Inferred from Electronic Annotation
more info
 
protein localization to plasma membrane IEA
Inferred from Electronic Annotation
more info
 
proton transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Golgi membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Golgi membrane TAS
Traceable Author Statement
more info
 
cell IEA
Inferred from Electronic Annotation
more info
 
cytoplasmic side of plasma membrane IEA
Inferred from Electronic Annotation
more info
 
cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
calcium-transporting ATPase type 2C member 2
Names
ATPase 2C2
ATPase, Ca++ transporting, type 2C, member 2
secretory pathway Ca(2+)-ATPase 2
secretory pathway calcium ATPase 2
NP_001273456.2
NP_001278383.1
NP_055676.3
XP_011521788.1
XP_011521789.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001286527.2NP_001273456.2  calcium-transporting ATPase type 2C member 2 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC022165, AY791884, BX648333, DB218862
    Consensus CDS
    CCDS67088.1
    UniProtKB/Swiss-Prot
    O75185
    UniProtKB/TrEMBL
    A0A0A0MSP0
    Related
    ENSP00000397925.2, ENST00000416219.6
    Conserved Domains (6) summary
    TIGR01522
    Location:55960
    ATPase-IIA2_Ca; golgi membrane calcium-translocating P-type ATPase
    COG4087
    Location:625709
    COG4087; Soluble P-type ATPase [General function prediction only]
    pfam00122
    Location:149368
    E1-E2_ATPase; E1-E2 ATPase
    pfam00689
    Location:756957
    Cation_ATPase_C; Cation transporting ATPase, C-terminus
    pfam00690
    Location:63125
    Cation_ATPase_N; Cation transporter/ATPase, N-terminus
    pfam13246
    Location:441523
    Cation_ATPase; Cation transport ATPase (P-type)
  2. NM_001291454.1NP_001278383.1  calcium-transporting ATPase type 2C member 2 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, contains multiple differences in the coding region, and initiates translation at an alternate downstream start codon, compared to variant 1. The resulting isoform (3) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AK091051, AY791884, BX648333
    UniProtKB/Swiss-Prot
    O75185
    UniProtKB/TrEMBL
    B3KR57
    Related
    ENST00000420010.6
    Conserved Domains (5) summary
    COG4087
    Location:474558
    COG4087; Soluble P-type ATPase [General function prediction only]
    TIGR01116
    Location:23777
    ATPase-IIA1_Ca; sarco/endoplasmic reticulum calcium-translocating P-type ATPase
    pfam00122
    Location:23217
    E1-E2_ATPase; E1-E2 ATPase
    pfam00689
    Location:605777
    Cation_ATPase_C; Cation transporting ATPase, C-terminus
    pfam13246
    Location:290372
    Cation_ATPase; Cation transport ATPase (P-type)
  3. NM_014861.4NP_055676.3  calcium-transporting ATPase type 2C member 2 isoform 2

    See identical proteins and their annotated locations for NP_055676.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1. The resulting isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AY791884, BX648333
    Consensus CDS
    CCDS42207.1
    UniProtKB/Swiss-Prot
    O75185
    Related
    ENSP00000262429.4, ENST00000262429.8
    Conserved Domains (1) summary
    cd02085
    Location:85927
    P-type_ATPase_SPCA; golgi-associated secretory pathway Ca(2+) transport ATPases, similar to human ATPase secretory pathway Ca(2+) transporting 1/hSPCA1 and Saccharomyces cerevisiae Ca(2+)/Mn(2+)-transporting P-type ATPase, Pmr1p

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    84368523..84465777
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011523486.2XP_011521788.1  calcium-transporting ATPase type 2C member 2 isoform X1

    Conserved Domains (6) summary
    TIGR01522
    Location:32937
    ATPase-IIA2_Ca; golgi membrane calcium-translocating P-type ATPase
    COG4087
    Location:602686
    COG4087; Soluble P-type ATPase [General function prediction only]
    pfam00122
    Location:126345
    E1-E2_ATPase; E1-E2 ATPase
    pfam00689
    Location:733934
    Cation_ATPase_C; Cation transporting ATPase, C-terminus
    pfam00690
    Location:40102
    Cation_ATPase_N; Cation transporter/ATPase, N-terminus
    pfam13246
    Location:418500
    Cation_ATPase; Cation transport ATPase (P-type)
  2. XM_011523487.2XP_011521789.1  calcium-transporting ATPase type 2C member 2 isoform X2

    Conserved Domains (3) summary
    COG4087
    Location:282366
    COG4087; Soluble P-type ATPase [General function prediction only]
    pfam00689
    Location:413614
    Cation_ATPase_C; Cation transporting ATPase, C-terminus
    pfam13246
    Location:98180
    Cation_ATPase; Cation transport ATPase (P-type)

RNA

  1. XR_001752045.1 RNA Sequence

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