Aph1b (aph-1 homolog B, gamma secretase subunit) - Rat Genome Database

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Gene: Aph1b (aph-1 homolog B, gamma secretase subunit) Rattus norvegicus
Analyze
Symbol: Aph1b
Name: aph-1 homolog B, gamma secretase subunit
RGD ID: 1562468
Description: Predicted to enable endopeptidase activator activity and protein-macromolecule adaptor activity. Involved in locomotory behavior. Predicted to be located in membrane and transport vesicle. Predicted to be part of gamma-secretase complex. Predicted to be active in endoplasmic reticulum. Human ortholog(s) of this gene implicated in coronary artery disease. Orthologous to human APH1B (aph-1 homolog B, gamma-secretase subunit); PARTICIPATES IN Notch signaling pathway; syndecan signaling pathway; Alzheimer's disease pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: anterior pharynx defective 1 homolog B; anterior pharynx defective 1 homolog B (C. elegans); anterior pharynx defective 1b homolog; anterior pharynx defective 1b homolog (C. elegans); APH-1B'; APH1B gamma secretase subunit; gamma-secretase subunit APH-1B; gamma-secretase subunit APH-1B-like; LOC108348064; presenilin stabilization factor-like; similar to anterior pharynx defective 1b homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8876,310,380 - 76,334,146 (-)NCBIGRCr8
mRatBN7.2867,429,198 - 67,454,735 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl867,429,198 - 67,450,243 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx872,962,644 - 72,984,343 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0871,235,477 - 71,257,176 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0869,070,986 - 69,092,038 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0872,508,008 - 72,598,921 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl872,476,425 - 72,629,265 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0876,942,439 - 76,963,484 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4871,122,681 - 71,143,726 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera874,251,130 - 74,264,693 (+)NCBICelera
Cytogenetic Map8q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
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Original Reference(s)
Aph1bRatcoronary artery disease  ISOAPH1B (Homo sapiens)13703124DNA:SNP:CDS:p.F217L (rs1047552) (human)RGD 
Aph1bRatHIV Seropositivity susceptibilityISOAPH1B (Homo sapiens)13703126DNA:SNP:CDS:p.F217L (rs1047552) (human)RGD 
Object Symbol
Species
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Original Reference(s)
Aph1bRatBloom syndrome  ISOAPH1B (Homo sapiens)8554872ClinVar Annotator: match by term: Bloom syndromeClinVarPMID:28492532
Aph1bRatcolorectal cancer  ISOAPH1B (Homo sapiens)8554872ClinVar Annotator: match by term: Familial colorectal cancerClinVarPMID:28492532
Aph1bRathypertrophic cardiomyopathy  ISOAPH1B (Homo sapiens)8554872ClinVar Annotator: match by term: Hypertrophic cardiomyopathyClinVarPMID:28492532
Aph1bRatnemaline myopathy 6  ISOAPH1B (Homo sapiens)8554872ClinVar Annotator: match by term: Nemaline myopathy 6ClinVarPMID:21681106 and PMID:24525055
Object Symbol
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Original Reference(s)
Aph1bRatAlzheimer's disease  ISOAPH1B (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:33589840

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Original Reference(s)
Aph1bRat(-)-epigallocatechin 3-gallate multiple interactionsISOAPH1B (Homo sapiens)6480464[potassium chromate(VI) co-treated with epigallocatechin gallate] results in decreased expression of APH1B mRNACTDPMID:22079256
Aph1bRat1,2-dimethylhydrazine decreases expressionISOAph1b (Mus musculus)64804641 and 2-Dimethylhydrazine results in decreased expression of APH1B mRNACTDPMID:22206623
Aph1bRat17beta-estradiol increases expressionISOAph1b (Mus musculus)6480464Estradiol results in increased expression of APH1B mRNACTDPMID:39298647
Aph1bRat2,3,7,8-tetrachlorodibenzodioxine multiple interactionsISOAph1b (Mus musculus)6480464AHR protein affects the reaction [Tetrachlorodibenzodioxin results in increased expression of APH1B mRNA]CTDPMID:16214954
Aph1bRat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of APH1B mRNACTDPMID:33387578
Aph1bRat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOAPH1B (Homo sapiens)6480464Tetrachlorodibenzodioxin results in increased expression of APH1B mRNACTDPMID:21632981
Aph1bRat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOAph1b (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of APH1B mRNACTDPMID:16214954
Aph1bRat2,6-dinitrotoluene affects expressionEXP 64804642 and 6-dinitrotoluene affects the expression of APH1B mRNACTDPMID:21346803
Aph1bRat2-palmitoylglycerol increases expressionISOAPH1B (Homo sapiens)64804642-palmitoylglycerol results in increased expression of APH1B mRNACTDPMID:37199045
Aph1bRat4,4'-sulfonyldiphenol decreases expressionISOAph1b (Mus musculus)6480464bisphenol S results in decreased expression of APH1B mRNACTDPMID:39298647
Aph1bRat4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one increases expressionEXP 64804644-(N-methyl-N-nitrosamino)-1-(3-pyridyl)-1-butanone results in increased expression of APH1B mRNACTDPMID:22484513
Aph1bRat4-hydroxyphenyl retinamide decreases expressionISOAph1b (Mus musculus)6480464Fenretinide results in decreased expression of APH1B mRNACTDPMID:28973697
Aph1bRat5-aza-2'-deoxycytidine affects expressionISOAPH1B (Homo sapiens)6480464Decitabine affects the expression of APH1B mRNACTDPMID:23300844
Aph1bRatacrylamide decreases expressionEXP 6480464Acrylamide results in decreased expression of APH1B mRNACTDPMID:28959563
Aph1bRatall-trans-retinoic acid increases expressionISOAPH1B (Homo sapiens)6480464Tretinoin results in increased expression of APH1B mRNACTDPMID:33167477
Aph1bRatalpha-Zearalanol multiple interactionsEXP 6480464[Zeranol co-treated with perfluorooctanoic acid] results in decreased expression of APH1B mRNACTDPMID:35163327
Aph1bRatamphetamine increases expressionEXP 6480464Amphetamine results in increased expression of APH1B mRNACTDPMID:30779732
Aph1bRatantirheumatic drug decreases expressionISOAPH1B (Homo sapiens)6480464Antirheumatic Agents results in decreased expression of APH1B mRNACTDPMID:24449571
Aph1bRataristolochic acid A increases expressionISOAPH1B (Homo sapiens)6480464aristolochic acid I results in increased expression of APH1B mRNACTDPMID:33212167
Aph1bRatbenzo[a]pyrene increases expressionISOAPH1B (Homo sapiens)6480464Benzo(a)pyrene results in increased expression of APH1B mRNACTDPMID:21632981

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Biological Process
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Original Reference(s)
Aph1bRatamyloid precursor protein catabolic process involved_inISOAPH1B (Homo sapiens)1624291UniProtKB:P05067 more ...RGDPMID:12763021 and PMID:27608597
Aph1bRatamyloid-beta formation involved_inISOAPH1B (Homo sapiens)1624291UniProtKB:P05067 more ...RGDPMID:12763021 and PMID:27608597
Aph1bRatamyloid-beta formation acts_upstream_of_or_withinISOAph1b (Mus musculus)1624291MGI:1202717 more ...RGDPMID:16371134
Aph1bRatlocomotory behavior  IMP 13703127 RGD 
Aph1bRatmembrane protein ectodomain proteolysis acts_upstream_of_or_withinISOAph1b (Mus musculus)1624291MGI:1915568 PMID:18626010RGDPMID:18626010
Aph1bRatNotch receptor processing involved_inISOAPH1B (Homo sapiens)1624291 PMID:27608597RGDPMID:27608597
Aph1bRatNotch receptor processing involved_inIBAFB:FBgn0031458 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Aph1bRatNotch signaling pathway involved_inIBAFB:FBgn0031458 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Aph1bRatNotch signaling pathway involved_inIEAUniProtKB-KW:KW-09141600115GO_REF:0000043UniProtGO_REF:0000043
Aph1bRatNotch signaling pathway involved_inIEAUniRule:UR0016937901600115GO_REF:0000104UniProtGO_REF:0000104
Aph1bRatprepulse inhibition acts_upstream_of_or_withinISOAph1b (Mus musculus)1624291MGI:1915568 PMID:18626010RGDPMID:18626010
Aph1bRatprotein processing involved_inISOAPH1B (Homo sapiens)1624291UniProtKB:P05067 more ...RGDPMID:12763021 and PMID:27608597
Aph1bRatprotein processing involved_inIEAUniRule:UR0016937901600115GO_REF:0000104UniProtGO_REF:0000104
Aph1bRatprotein processing involved_inIBAMGI:1915568 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Aph1bRatprotein processing involved_inIEAInterPro:IPR0092941600115GO_REF:0000002InterProGO_REF:0000002
Aph1bRatprotein processing acts_upstream_of_or_withinISOAPH1B (Homo sapiens)1624291 PMID:12297508RGDPMID:12297508
Aph1bRatshort-term memory acts_upstream_of_or_withinISOAph1b (Mus musculus)1624291MGI:1915568 PMID:18626010RGDPMID:18626010
Aph1bRatsynaptic transmission, dopaminergic acts_upstream_of_or_withinISOAph1b (Mus musculus)1624291MGI:1915568 PMID:18626010RGDPMID:18626010
Aph1bRatsynaptic transmission, glutamatergic acts_upstream_of_or_withinISOAph1b (Mus musculus)1624291MGI:1915568 PMID:18626010RGDPMID:18626010
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Cellular Component
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Original Reference(s)
Aph1bRatendoplasmic reticulum is_active_inIBAPANTHER:PTN000306732 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Aph1bRatgamma-secretase complex part_ofISOAPH1B (Homo sapiens)1624291UniProtKB:P05067 more ...RGDPMID:12297508 and PMID:12763021
Aph1bRatgamma-secretase complex part_ofIEAUniRule:UR0016937901600115GO_REF:0000104UniProtGO_REF:0000104
Aph1bRatgamma-secretase complex part_ofISOAph1b (Mus musculus)1624291MGI:1915568 PMID:16371134 more ...RGDPMID:16371134 more ...
Aph1bRatgamma-secretase complex part_ofIBAFB:FBgn0031458 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Aph1bRatgamma-secretase complex part_ofIEAARBA:ARBA000498241600115GO_REF:0000117UniProtGO_REF:0000117
Aph1bRatmembrane located_inISOAPH1B (Homo sapiens)1624291 PMID:12297508RGDPMID:12297508
Aph1bRatmembrane located_inIEAUniProtKB-SubCell:SL-01621600115GO_REF:0000044UniProtGO_REF:0000044
Aph1bRatmembrane located_inIEAInterPro:IPR0092941600115GO_REF:0000002InterProGO_REF:0000002
Aph1bRatmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Aph1bRatmembrane located_inIEAUniRule:UR0016937901600115GO_REF:0000104UniProtGO_REF:0000104
Aph1bRatsynapse located_inIEAGO:00019631600115GO_REF:0000108GOCGO_REF:0000108
Aph1bRattransport vesicle located_inISOAPH1B (Homo sapiens)1624291 RGDGO_REF:0000054
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Molecular Function

  

RGD Manual Annotations


  
Object Symbol
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Original Reference(s)
Aph1bRatNotch signaling pathway   ISOAPH1B (Homo sapiens)2302204 RGD 

Imported Annotations - KEGG (archival)

Object Symbol
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Original Reference(s)
Aph1bRatAlzheimer's disease pathway   IEA 6907045 KEGGrno:05010
Aph1bRatNotch signaling pathway   IEA 6907045 KEGGrno:04330

Imported Annotations - PID (archival)

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Original Reference(s)
Aph1bRatNotch signaling pathway   ISOAPH1B (Homo sapiens)6484113 PIDPID:200015
Aph1bRatsyndecan signaling pathway  ISOAPH1B (Homo sapiens)6484113 PIDPID:200198
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Original Reference(s)
Aph1bRatdecreased gnawing activity  IAGP 13703127DNA:duplicationsRGD 

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#
Reference Title
Reference Citation
1. Gene dosage effect on gamma-secretase component Aph-1b in a rat model for neurodevelopmental disorders. Coolen MW, etal., Neuron. 2005 Feb 17;45(4):497-503. doi: 10.1016/j.neuron.2004.12.054.
2. Cell and molecular biology of Notch. Fiuza UM and Arias AM, J Endocrinol. 2007 Sep;194(3):459-74.
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. [Effect of ßsheet blocking peptide H102 on APP metabolic enzymes in hippocampal brain of double transgenic AD mice]. Jiang F, etal., Zhongguo Ying Yong Sheng Li Xue Za Zhi. 2017 Apr 8;33(4):299-303. doi: 10.12047/j.cjap.5516.2017.073.
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
7. GOA pipeline RGD automated data pipeline
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
10. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
11. Correlation between HIV-1 seropositivity and prevalence of a gamma-secretase polymorphism in two distinct ethnic populations. van Loo KM, etal., J Med Virol. 2009 Nov;81(11):1847-51. doi: 10.1002/jmv.21601.
12. Male-specific association between a gamma-secretase polymorphism and premature coronary atherosclerosis. van Loo KM, etal., PLoS One. 2008;3(11):e3662. doi: 10.1371/journal.pone.0003662. Epub 2008 Nov 6.
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PMID:12297508   PMID:15634781   PMID:16249316   PMID:16718279   PMID:19896980   PMID:24397211  



Aph1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8876,310,380 - 76,334,146 (-)NCBIGRCr8
mRatBN7.2867,429,198 - 67,454,735 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl867,429,198 - 67,450,243 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx872,962,644 - 72,984,343 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0871,235,477 - 71,257,176 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0869,070,986 - 69,092,038 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0872,508,008 - 72,598,921 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl872,476,425 - 72,629,265 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0876,942,439 - 76,963,484 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4871,122,681 - 71,143,726 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera874,251,130 - 74,264,693 (+)NCBICelera
Cytogenetic Map8q24NCBI
APH1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381563,277,605 - 63,309,126 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1563,276,018 - 63,309,126 (+)EnsemblGRCh38hg38GRCh38
GRCh371563,569,804 - 63,601,325 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361561,356,844 - 61,385,166 (+)NCBINCBI36Build 36hg18NCBI36
Build 341561,356,843 - 61,385,166NCBI
Celera1540,448,497 - 40,480,071 (+)NCBICelera
Cytogenetic Map15q22.2NCBI
HuRef1540,392,589 - 40,424,164 (+)NCBIHuRef
CHM1_11563,688,803 - 63,720,382 (+)NCBICHM1_1
T2T-CHM13v2.01561,082,385 - 61,113,909 (+)NCBIT2T-CHM13v2.0
Aph1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39966,682,484 - 66,704,671 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl966,682,484 - 66,702,772 (-)EnsemblGRCm39 Ensembl
GRCm38966,775,202 - 66,797,345 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl966,775,202 - 66,795,490 (-)EnsemblGRCm38mm10GRCm38
MGSCv37966,623,294 - 66,643,230 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36966,574,631 - 66,594,567 (-)NCBIMGSCv36mm8
Celera964,009,856 - 64,029,635 (-)NCBICelera
Cytogenetic Map9CNCBI
cM Map936.12NCBI
Aph1b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545012,000,424 - 12,022,071 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545012,000,682 - 12,022,183 (-)NCBIChiLan1.0ChiLan1.0
APH1B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21652,526,034 - 52,554,488 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11556,702,155 - 56,733,766 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01542,224,593 - 42,256,202 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11560,520,031 - 60,551,599 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1560,520,031 - 60,551,599 (+)Ensemblpanpan1.1panPan2
APH1B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13027,852,784 - 27,887,618 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3027,855,249 - 27,887,601 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3027,772,768 - 27,806,586 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03028,025,424 - 28,059,260 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3028,025,285 - 28,058,138 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13027,962,895 - 27,996,685 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03028,024,979 - 28,058,785 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03028,268,502 - 28,298,404 (+)NCBIUU_Cfam_GSD_1.0
Aph1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640105,991,875 - 106,021,729 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647123,839,907 - 23,869,935 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647123,839,962 - 23,869,788 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
APH1B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1108,730,298 - 108,763,401 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11108,549,297 - 108,763,279 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21119,981,006 - 119,988,547 (-)NCBISscrofa10.2Sscrofa10.2susScr3
APH1B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12620,236,666 - 20,265,167 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2620,240,015 - 20,265,151 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048121,135,804 - 121,164,327 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Aph1b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247819,217,741 - 9,249,477 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247819,152,359 - 9,249,467 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Aph1b
112 total Variants

Predicted Target Of
Summary Value
Count of predictions:224
Count of miRNA genes:143
Interacting mature miRNAs:164
Transcripts:ENSRNOT00000024176
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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.


1 to 10 of 56 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat
4889938Bss89Bone structure and strength QTL 893.8tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)85009524982460899Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat

1 to 10 of 56 rows
RH141122  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera866,730,813 - 66,731,028UniSTS
Celera198,768,751 - 8,768,966UniSTS
RH 3.4 Map1855.5UniSTS
Cytogenetic Map8q24UniSTS




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
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31



Ensembl Acc Id: ENSRNOT00000024176   ⟹   ENSRNOP00000024176
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,429,198 - 67,450,243 (-)Ensembl
Rnor_6.0 Ensembl872,608,220 - 72,629,265 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000024207   ⟹   ENSRNOP00000024207
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl872,476,425 - 72,629,234 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000057704   ⟹   ENSRNOP00000054515
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl872,476,955 - 72,629,128 (-)Ensembl
RefSeq Acc Id: NM_001047090   ⟹   NP_001040555
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8876,310,380 - 76,331,428 (-)NCBI
mRatBN7.2867,429,198 - 67,450,243 (-)NCBI
Rnor_6.0872,508,008 - 72,598,921 (-)NCBI
Rnor_5.0876,942,439 - 76,963,484 (-)NCBI
RGSC_v3.4871,122,681 - 71,143,726 (-)RGD
Celera874,251,130 - 74,264,693 (+)RGD
Sequence:
RefSeq Acc Id: XM_039081129   ⟹   XP_038937057
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8876,322,265 - 76,334,146 (-)NCBI
mRatBN7.2867,441,942 - 67,454,735 (-)NCBI
Protein RefSeqs NP_001040555 (Get FASTA)   NCBI Sequence Viewer  
  XP_038937057 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH98711 (Get FASTA)   NCBI Sequence Viewer  
  AAI66592 (Get FASTA)   NCBI Sequence Viewer  
  ABG66305 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024176
  ENSRNOP00000024176.5
RefSeq Acc Id: NP_001040555   ⟸   NM_001047090
- UniProtKB: Q0PY50 (UniProtKB/TrEMBL),   D4A4J6 (UniProtKB/TrEMBL),   D3ZEJ1 (UniProtKB/TrEMBL),   Q4G070 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_038937057   ⟸   XM_039081129
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000024207   ⟸   ENSRNOT00000024207
Ensembl Acc Id: ENSRNOP00000054515   ⟸   ENSRNOT00000057704
Ensembl Acc Id: ENSRNOP00000024176   ⟸   ENSRNOT00000024176

Name Modeler Protein Id AA Range Protein Structure
AF-Q0PY50-F1-model_v2 AlphaFold Q0PY50 1-257 view protein structure


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



1 to 21 of 21 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-30009 BioCyc
Ensembl Genes ENSRNOG00000027295 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024176 ENTREZGENE
  ENSRNOT00000024176.6 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7321686 IMAGE-MGC_LOAD
  IMAGE:7929867 IMAGE-MGC_LOAD
InterPro Aph-1 UniProtKB/TrEMBL
KEGG Report rno:300802 UniProtKB/TrEMBL
MGC_CLONE MGC:112700 IMAGE-MGC_LOAD
  MGC:188357 IMAGE-MGC_LOAD
NCBI Gene 300802 ENTREZGENE
PANTHER Aph-1 UniProtKB/TrEMBL
Pfam Aph-1 UniProtKB/TrEMBL
PhenoGen Aph1b PhenoGen
RatGTEx ENSRNOG00000027295 RatGTEx
UniProt D3ZEJ1 ENTREZGENE
  D4A4J6 ENTREZGENE
  Q0PY50 ENTREZGENE, UniProtKB/TrEMBL
  Q4G070 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary D3ZEJ1 UniProtKB/TrEMBL
  D4A4J6 UniProtKB/TrEMBL
1 to 21 of 21 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Aph1b  aph-1 homolog B, gamma secretase subunit  LOC108348064  gamma-secretase subunit APH-1B-like  Data merged from RGD:11363519 737654 PROVISIONAL
2016-08-02 LOC108348064  gamma-secretase subunit APH-1B-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2015-12-02 Aph1b  aph-1 homolog B, gamma secretase subunit  Aph1b  APH1B gamma secretase subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-09-12 Aph1b  APH1B gamma secretase subunit  Aph1b  anterior pharynx defective 1 homolog B (C. elegans)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Aph1b  anterior pharynx defective 1 homolog B (C. elegans)  LOC681486  similar to anterior pharynx defective 1b homolog  Data merged from RGD:1595348 1643240 APPROVED
2008-09-25 Aph1b  anterior pharynx defective 1 homolog B (C. elegans)  Aph1b  anterior pharynx defective 1b homolog (C. elegans)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC681486  similar to anterior pharynx defective 1b homolog      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-30 Aph1b  anterior pharynx defective 1b homolog (C. elegans)    presenilin stabilization factor-like  Name updated 1299863 APPROVED
2006-02-09 Aph1b  presenilin stabilization factor-like      Symbol and Name status set to provisional 70820 PROVISIONAL