Alpp (alkaline phosphatase, placental) - Rat Genome Database

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Gene: Alpp (alkaline phosphatase, placental) Rattus norvegicus
Analyze
Symbol: Alpp
Name: alkaline phosphatase, placental
RGD ID: 2325055
Description: Predicted to enable alkaline phosphatase activity. Predicted to be located in cell surface. Predicted to be active in plasma membrane. Orthologous to human ALPP (alkaline phosphatase, placental); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; N-nitrosodiethylamine; (25R)-cholest-5-ene-3beta,26-diol (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: alkaline phosphatase, germ cell type; alkaline phosphatase, placental-like; LOC100359675; rCG23846-like
RGD Orthologs
Human
Mouse
Bonobo
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8995,213,763 - 95,216,509 (-)NCBIGRCr8
GRCr8 Ensembl995,213,374 - 95,219,451 (-)EnsemblGRCr8 Ensembl
mRatBN7.2987,765,846 - 87,768,606 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl987,765,860 - 87,768,606 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0994,189,961 - 94,193,054 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl994,190,067 - 94,192,813 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,915,268 - 93,918,014 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,885,336 - 85,888,082 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera985,179,458 - 85,182,551 (-)NCBICelera
Cytogenetic Map9q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(25R)-cholest-5-ene-3beta,26-diol  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
26-hydroxycholesterol  (ISO)
3',5'-cyclic AMP  (ISO)
4-nitrophenyl phosphate  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acetophenone  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alternariol  (ISO)
amphetamine  (ISO)
arsenous acid  (ISO)
atazanavir sulfate  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
carbon nanotube  (ISO)
chenodeoxycholic acid  (ISO)
chloropicrin  (ISO)
chlorpromazine  (ISO)
clozapine  (ISO)
colforsin daropate hydrochloride  (ISO)
coumarin  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
deoxycholic acid  (ISO)
desipramine  (ISO)
diallyl disulfide  (ISO)
diarsenic trioxide  (ISO)
endosulfan  (ISO)
epitestosterone  (ISO)
estrone  (ISO)
etoposide  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
glycidyl methacrylate  (ISO)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
graphite  (ISO)
hydrogen peroxide  (ISO)
ICI 118551  (ISO)
isoprenaline  (ISO)
lithium chloride  (ISO)
methotrexate  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-nitrosodiethylamine  (EXP)
nefazodone  (ISO)
Norfluoxetine  (ISO)
Nutlin-3  (ISO)
okadaic acid  (ISO)
paracetamol  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
resveratrol  (ISO)
S-nitrosoglutathione  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
strontium dichloride  (ISO)
sulforaphane  (ISO)
Sunset Yellow FCF  (ISO)
testosterone  (ISO)
thapsigargin  (ISO)
thiram  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
brush border  (ISO)
cell surface  (ISO)
membrane  (IEA)
myofibril  (IEA)
plasma membrane  (IBA,IEA,ISO)
side of membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:1939159   PMID:2017684   PMID:2133555   PMID:15907827  


Genomics

Comparative Map Data
Alpp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8995,213,763 - 95,216,509 (-)NCBIGRCr8
GRCr8 Ensembl995,213,374 - 95,219,451 (-)EnsemblGRCr8 Ensembl
mRatBN7.2987,765,846 - 87,768,606 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl987,765,860 - 87,768,606 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0994,189,961 - 94,193,054 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl994,190,067 - 94,192,813 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,915,268 - 93,918,014 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,885,336 - 85,888,082 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera985,179,458 - 85,182,551 (-)NCBICelera
Cytogenetic Map9q35NCBI
ALPP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382232,378,751 - 232,382,889 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2232,378,724 - 232,382,889 (+)EnsemblGRCh38hg38GRCh38
GRCh372233,243,461 - 233,247,599 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362232,951,592 - 232,955,843 (+)NCBINCBI36Build 36hg18NCBI36
Build 342233,068,964 - 233,073,097NCBI
Celera2227,007,506 - 227,011,757 (+)NCBICelera
Cytogenetic Map2q37.1NCBI
HuRef2225,094,117 - 225,098,368 (+)NCBIHuRef
CHM1_12233,249,521 - 233,253,772 (+)NCBICHM1_1
T2T-CHM13v2.02232,865,486 - 232,869,624 (+)NCBIT2T-CHM13v2.0
Akp3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39187,052,676 - 87,056,450 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl187,052,695 - 87,055,634 (+)EnsemblGRCm39 Ensembl
GRCm38187,124,954 - 87,128,728 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl187,124,973 - 87,127,912 (+)EnsemblGRCm38mm10GRCm38
MGSCv37189,021,583 - 89,024,487 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36188,956,179 - 88,959,083 (+)NCBIMGSCv36mm8
Celera190,096,273 - 90,099,180 (+)NCBICelera
Cytogenetic Map1C5NCBI
cM Map144.06NCBI
LOC100991867
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213134,969,951 - 134,974,378 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B134,981,476 - 134,989,344 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B119,594,655 - 119,600,138 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B238,383,768 - 238,566,258 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B238,383,768 - 238,388,105 (+)Ensemblpanpan1.1panPan2
LOC100157453
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.115132,937,975 - 132,941,979 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215145,171,285 - 145,263,529 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ALPP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110118,388,987 - 118,393,022 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604081,107,840 - 81,112,706 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Alpp
24 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:40
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000025978
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)956047863101047863Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)963376862108376862Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94445825699506504Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)965657365108376720Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)986720043110356905Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)986720043121768150Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)964220169109220169Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)944458256121768150Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)964220169109220169Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)964220169109220169Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)968875497121768150Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)983161999118999486Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)985262459109044727Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)985262459118999486Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)948718864108376862Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)95450650499506504Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)964220169109220169Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
9 5 15 96 33 33 6 17 6 6 76 52 78 6 50 27 3 3

Sequence


Ensembl Acc Id: ENSRNOT00000025978   ⟹   ENSRNOP00000026095
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl995,213,374 - 95,219,451 (-)Ensembl
mRatBN7.2 Ensembl987,765,860 - 87,768,606 (-)Ensembl
Rnor_6.0 Ensembl994,190,067 - 94,192,813 (-)Ensembl
RefSeq Acc Id: XM_002730058   ⟹   XP_002730104
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8995,213,763 - 95,216,509 (-)NCBI
mRatBN7.2987,765,846 - 87,768,606 (-)NCBI
Rnor_6.0994,189,961 - 94,193,054 (-)NCBI
Rnor_5.0993,915,268 - 93,918,014 (-)NCBI
RGSC_v3.4985,885,336 - 85,888,082 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs XP_002730104 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000026095
  ENSRNOP00000026095.3
RefSeq Acc Id: XP_002730104   ⟸   XM_002730058
- UniProtKB: D4ADM6 (UniProtKB/TrEMBL),   A6JWK4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000026095   ⟸   ENSRNOT00000025978

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADM6-F1-model_v2 AlphaFold D4ADM6 1-529 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2325055 AgrOrtholog
BioCyc Gene G2FUF-26856 BioCyc
Ensembl Genes ENSRNOG00000033672 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025978 ENTREZGENE
  ENSRNOT00000025978.5 UniProtKB/TrEMBL
Gene3D-CATH 3.40.720.10 UniProtKB/TrEMBL
InterPro Alkaline_phosphatase UniProtKB/TrEMBL
  Alkaline_phosphatase_AS UniProtKB/TrEMBL
  Alkaline_phosphatase_core UniProtKB/TrEMBL
NCBI Gene 100359675 ENTREZGENE
PANTHER ALKALINE PHOSPHATASE, GERM CELL TYPE UniProtKB/TrEMBL
  PTHR11596 UniProtKB/TrEMBL
Pfam Alk_phosphatase UniProtKB/TrEMBL
PhenoGen Alpp PhenoGen
PRINTS ALKPHPHTASE UniProtKB/TrEMBL
PROSITE ALKALINE_PHOSPHATASE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000033672 RatGTEx
SMART alkPPc UniProtKB/TrEMBL
Superfamily-SCOP Alkaline_phosphatase_core UniProtKB/TrEMBL
UniProt A6JWK4 ENTREZGENE, UniProtKB/TrEMBL
  D4ADM6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-07-24 Alpp  alkaline phosphatase, placental  LOC100359675  rCG23846-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-20 LOC100359675  rCG23846-like      Symbol and Name status set to provisional 70820 PROVISIONAL