Alpi (alkaline phosphatase, intestinal) - Rat Genome Database

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Gene: Alpi (alkaline phosphatase, intestinal) Rattus norvegicus
Analyze
Symbol: Alpi
Name: alkaline phosphatase, intestinal
RGD ID: 2099
Description: Enables alkaline phosphatase activity; metal ion binding activity; and protein homodimerization activity. Predicted to act upstream of or within cellular response to BMP stimulus. Located in external side of plasma membrane. Human ortholog(s) of this gene implicated in inflammatory bowel disease. Orthologous to several human genes including ALPI (alkaline phosphatase, intestinal); PARTICIPATES IN folate metabolic pathway; INTERACTS WITH 2,4,6-trinitrobenzenesulfonic acid; 3,7-dihydropurine-6-thione; actinomycin D.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Alkaline phosphatase 1, intestinal, defined by SSR; Alp1; IAP-1; IAP-I; intestinal alkaline phosphatase; intestinal alkaline phosphatase 1; intestinal alkaline phosphatase I IAP-I; intestinal alkaline phosphatase I, IAP-I; intestinal-type alkaline phosphatase 1; S51097
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8995,221,314 - 95,224,780 (-)NCBIGRCr8
mRatBN7.2987,773,411 - 87,776,877 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl987,773,411 - 87,776,877 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx996,197,663 - 96,201,129 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09101,333,414 - 101,336,880 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0999,701,666 - 99,705,132 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0994,197,616 - 94,201,910 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl994,197,618 - 94,201,084 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,922,817 - 93,926,531 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,892,887 - 85,896,353 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1986,076,305 - 86,079,772 (-)NCBI
Celera985,187,115 - 85,190,581 (-)NCBICelera
Cytogenetic Map9q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Two rat intestinal alkaline phosphatase isoforms with different carboxyl-terminal peptides are both membrane-bound by a glycan phosphatidylinositol linkage. Engle MJ, etal., J Biol Chem. 1995 May 19;270(20):11935-40.
2. Intestinal alkaline phosphatase deficiency leads to dysbiosis and bacterial translocation in the newborn intestine. Fawley J, etal., J Surg Res. 2017 Oct;218:35-42. doi: 10.1016/j.jss.2017.03.049. Epub 2017 Apr 13.
3. 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.
4. Crystal structure of rat intestinal alkaline phosphatase--role of crown domain in mammalian alkaline phosphatases. Ghosh K, etal., J Struct Biol. 2013 Nov;184(2):182-92. doi: 10.1016/j.jsb.2013.09.017. Epub 2013 Sep 27.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Characterization of structural and catalytic differences in rat intestinal alkaline phosphatase isozymes. Harada T, etal., FEBS J. 2005 May;272(10):2477-86.
7. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
8. Molecular cloning and expression of a cDNA encoding the membrane-associated rat intestinal alkaline phosphatase. Lowe M, etal., Biochim Biophys Acta 1990 Feb 9;1037(2):170-7.
9. Intestinal alkaline phosphatase in the colonic mucosa of children with inflammatory bowel disease. Molnár K, etal., World J Gastroenterol. 2012 Jul 7;18(25):3254-9. doi: 10.3748/wjg.v18.i25.3254.
10. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. Human ALPI deficiency causes inflammatory bowel disease and highlights a key mechanism of gut homeostasis. Parlato M, etal., EMBO Mol Med. 2018 Apr;10(4). pii: emmm.201708483. doi: 10.15252/emmm.201708483.
12. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
13. GOA pipeline RGD automated data pipeline
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. The two isozymes of rat intestinal alkaline phosphatase are products of two distinct genes. Xie Q and Alpers DH, Physiol Genomics 2000 Jun 29;3(1):1-8.
Additional References at PubMed
PMID:1458592   PMID:18307834   PMID:19407215   PMID:21324897   PMID:22018098   PMID:22405696   PMID:27939968   PMID:28739053   PMID:29723880   PMID:31904090  


Genomics

Comparative Map Data
Alpi
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8995,221,314 - 95,224,780 (-)NCBIGRCr8
mRatBN7.2987,773,411 - 87,776,877 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl987,773,411 - 87,776,877 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx996,197,663 - 96,201,129 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09101,333,414 - 101,336,880 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0999,701,666 - 99,705,132 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0994,197,616 - 94,201,910 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl994,197,618 - 94,201,084 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,922,817 - 93,926,531 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,892,887 - 85,896,353 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1986,076,305 - 86,079,772 (-)NCBI
Celera985,187,115 - 85,190,581 (-)NCBICelera
Cytogenetic Map9q35NCBI
ALPI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382232,456,153 - 232,460,753 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2232,456,125 - 232,460,753 (+)EnsemblGRCh38hg38GRCh38
GRCh372233,320,863 - 233,325,463 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362233,029,077 - 233,032,986 (+)NCBINCBI36Build 36hg18NCBI36
Build 342233,146,369 - 233,150,245NCBI
Celera2227,085,143 - 227,089,052 (+)NCBICelera
Cytogenetic Map2q37.1NCBI
HuRef2225,171,620 - 225,175,529 (+)NCBIHuRef
CHM1_12233,326,952 - 233,330,861 (+)NCBICHM1_1
T2T-CHM13v2.02232,942,959 - 232,947,559 (+)NCBIT2T-CHM13v2.0
Alpi
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39187,025,724 - 87,029,328 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl187,025,724 - 87,029,328 (-)EnsemblGRCm39 Ensembl
GRCm38187,098,002 - 87,101,606 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl187,098,002 - 87,101,606 (-)EnsemblGRCm38mm10GRCm38
MGSCv37188,994,579 - 88,998,181 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36188,929,175 - 88,932,777 (-)NCBIMGSCv36mm8
Celera190,070,193 - 90,073,795 (-)NCBICelera
Cytogenetic Map1C5NCBI
cM Map144.05NCBI
ALPI
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213135,061,545 - 135,066,147 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B135,076,510 - 135,081,112 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B119,687,673 - 119,692,300 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B238,606,722 - 238,611,358 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B238,606,722 - 238,611,350 (+)Ensemblpanpan1.1panPan2
ALPI
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12544,107,418 - 44,110,947 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2544,599,493 - 44,605,512 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02544,362,849 - 44,368,868 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2544,365,568 - 44,369,594 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12544,288,748 - 44,294,774 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02544,134,063 - 44,140,066 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02544,288,686 - 44,294,699 (+)NCBIUU_Cfam_GSD_1.0
LOC101973915
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303186,319,789 - 186,323,568 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365254,616,212 - 4,619,932 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC103218081
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110118,475,701 - 118,480,391 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10118,476,215 - 118,479,499 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604081,022,806 - 81,072,279 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Alpi
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248435,237,041 - 5,239,806 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Alpi
18 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:204
Count of miRNA genes:130
Interacting mature miRNAs:138
Transcripts:ENSRNOT00000026190
Prediction methods:Microtar, 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 (mRatBN7.2)
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)94859825193598251Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)97927151191616855Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
12879506Pur33Proteinuria QTL 33urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)98636963192058970Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
8 1 6 28 20 15 10 6 36 28 16 31 15

Sequence


Ensembl Acc Id: ENSRNOT00000026190   ⟹   ENSRNOP00000026190
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl987,773,411 - 87,776,877 (-)Ensembl
Rnor_6.0 Ensembl994,197,618 - 94,201,084 (-)Ensembl
RefSeq Acc Id: NM_022665   ⟹   NP_073156
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8995,221,314 - 95,224,780 (-)NCBI
mRatBN7.2987,773,411 - 87,776,877 (-)NCBI
Rnor_6.0994,197,618 - 94,201,084 (-)NCBI
Rnor_5.0993,922,817 - 93,926,531 (-)NCBI
RGSC_v3.4985,892,887 - 85,896,353 (-)RGD
Celera985,187,115 - 85,190,581 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_073156 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF36717 (Get FASTA)   NCBI Sequence Viewer  
  CAA35613 (Get FASTA)   NCBI Sequence Viewer  
  EDL75614 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000026190.3
GenBank Protein P15693 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_073156   ⟸   NM_022665
- Peptide Label: precursor
- UniProtKB: P15693 (UniProtKB/Swiss-Prot),   G3V8I1 (UniProtKB/TrEMBL),   A6JWK6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000026190   ⟸   ENSRNOT00000026190

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P15693-F1-model_v2 AlphaFold P15693 1-540 view protein structure

Transcriptome

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

Promoters
RGD ID:13696829
Promoter ID:EPDNEW_R7354
Type:initiation region
Name:Alpi_1
Description:alkaline phosphatase, intestinal
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0994,201,114 - 94,201,174EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2099 AgrOrtholog
BioCyc Gene G2FUF-26855 BioCyc
Ensembl Genes ENSRNOG00000030020 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026190.5 UniProtKB/TrEMBL
Gene3D-CATH 3.40.720.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Alkaline_phosphatase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Alkaline_phosphatase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Alkaline_phosphatase_core_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24197 UniProtKB/TrEMBL
NCBI Gene 24197 ENTREZGENE
PANTHER INTESTINAL-TYPE ALKALINE PHOSPHATASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11596 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Alk_phosphatase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Alpi PhenoGen
PRINTS ALKPHPHTASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ALKALINE_PHOSPHATASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000030020 RatGTEx
SMART alkPPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53649 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6JWK6 ENTREZGENE, UniProtKB/TrEMBL
  G3V8I1 ENTREZGENE, UniProtKB/TrEMBL
  P15693 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-15 Alpi  alkaline phosphatase, intestinal  Alpi  Alkaline phosphatase 1, intestinal, defined by SSR  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Alpi  Alkaline phosphatase 1, intestinal, defined by SSR      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization enzyme is anchored to membrane by a phosphatidylinositol glycan 632196
gene_function intestinal enzyme that catalyzes the conversion of an orthophosphoric monoester to an alcohol phosphate 632197
gene_other IAP-I is one of two distinct intestinal alkaline phosphatases 632197