Apbb1ip (amyloid beta precursor protein binding family B member 1 interacting protein) - Rat Genome Database

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Gene: Apbb1ip (amyloid beta precursor protein binding family B member 1 interacting protein) Rattus norvegicus
Analyze
Symbol: Apbb1ip
Name: amyloid beta precursor protein binding family B member 1 interacting protein
RGD ID: 1304795
Description: Predicted to be involved in signal transduction. Predicted to act upstream of or within T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell and positive regulation of cell adhesion. Predicted to be part of T cell receptor complex. Predicted to be active in cytosol and plasma membrane. Orthologous to human APBB1IP (amyloid beta precursor protein binding family B member 1 interacting protein); PARTICIPATES IN integrin mediated signaling pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein; LOC307171
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81789,849,474 - 89,941,099 (+)NCBIGRCr8
mRatBN7.21784,941,404 - 85,033,020 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1784,982,243 - 85,033,010 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1788,465,265 - 88,517,387 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01792,300,651 - 92,352,775 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01786,317,449 - 86,369,569 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01790,098,953 - 90,149,192 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1790,099,025 - 90,149,894 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01791,762,064 - 91,812,342 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41796,476,962 - 96,527,635 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11796,436,450 - 96,538,308 (+)NCBI
Celera1783,861,327 - 83,910,596 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-palmitoylglycerol  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
8-Br-cAMP  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
CGP 52608  (ISO)
choline  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
diarsenic trioxide  (ISO)
diquat  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
ethanol  (ISO)
ethylparaben  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
ivermectin  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
methoxychlor  (EXP)
N(4)-hydroxycytidine  (ISO)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
O-methyleugenol  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paclitaxel  (EXP)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (EXP)
Soman  (EXP)
sulforaphane  (ISO)
temozolomide  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Integrin activation. Banno A and Ginsberg MH, Biochem Soc Trans. 2008 Apr;36(Pt 2):229-34. doi: 10.1042/BST0360229.
2. 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.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:17403904  


Genomics

Comparative Map Data
Apbb1ip
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81789,849,474 - 89,941,099 (+)NCBIGRCr8
mRatBN7.21784,941,404 - 85,033,020 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1784,982,243 - 85,033,010 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1788,465,265 - 88,517,387 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01792,300,651 - 92,352,775 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01786,317,449 - 86,369,569 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01790,098,953 - 90,149,192 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1790,099,025 - 90,149,894 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01791,762,064 - 91,812,342 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41796,476,962 - 96,527,635 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11796,436,450 - 96,538,308 (+)NCBI
Celera1783,861,327 - 83,910,596 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
APBB1IP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381026,438,341 - 26,567,803 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1026,438,341 - 26,567,803 (+)EnsemblGRCh38hg38GRCh38
GRCh371026,727,270 - 26,856,732 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361026,767,272 - 26,896,738 (+)NCBINCBI36Build 36hg18NCBI36
Build 341026,767,271 - 26,896,736NCBI
Celera1026,439,007 - 26,568,370 (+)NCBICelera
Cytogenetic Map10p12.1NCBI
HuRef1026,386,953 - 26,516,379 (+)NCBIHuRef
CHM1_11026,728,114 - 26,857,331 (+)NCBICHM1_1
T2T-CHM13v2.01026,462,982 - 26,592,541 (+)NCBIT2T-CHM13v2.0
Apbb1ip
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39222,645,983 - 22,765,671 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl222,664,106 - 22,765,665 (+)EnsemblGRCm39 Ensembl
GRCm38222,755,971 - 22,875,653 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl222,774,094 - 22,875,653 (+)EnsemblGRCm38mm10GRCm38
MGSCv37222,629,847 - 22,731,173 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36222,626,079 - 22,727,017 (+)NCBIMGSCv36mm8
Celera222,505,057 - 22,606,795 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map215.15NCBI
Apbb1ip
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554292,871,943 - 2,930,213 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554292,874,783 - 2,973,321 (-)NCBIChiLan1.0ChiLan1.0
APBB1IP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2839,028,529 - 39,260,808 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11039,061,515 - 39,266,134 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01026,613,897 - 26,740,670 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11026,978,997 - 27,104,802 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1027,030,218 - 27,104,483 (+)Ensemblpanpan1.1panPan2
APBB1IP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.127,151,443 - 7,250,412 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl27,151,443 - 7,212,200 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha25,904,528 - 6,003,956 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.025,341,344 - 5,447,384 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl25,340,392 - 5,439,018 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.124,718,182 - 4,817,518 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.024,797,415 - 4,896,884 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.024,962,631 - 5,062,108 (-)NCBIUU_Cfam_GSD_1.0
Apbb1ip
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934425,744,213 - 25,844,462 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364841,950,017 - 2,009,575 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364841,909,547 - 2,009,596 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
APBB1IP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1049,124,543 - 49,189,308 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11049,125,074 - 49,242,864 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21054,365,892 - 54,429,744 (+)NCBISscrofa10.2Sscrofa10.2susScr3
APBB1IP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1926,163,881 - 26,289,713 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl926,122,428 - 26,289,708 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605132,109,310 - 32,240,467 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Apbb1ip
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247962,510,878 - 2,568,532 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247962,512,292 - 2,621,505 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Apbb1ip
852 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:46
Interacting mature miRNAs:47
Transcripts:ENSRNOT00000024272
Prediction methods:Miranda
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
1358295Aocep1Aortic cell protein QTL 16.10.00000071thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174099000585990005Rat
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)174992015486533673Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175004027186533673Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175090909986022412Rat
2317045Aia11Adjuvant induced arthritis QTL 114.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)176078142686533673Rat
7411577Bw141Body weight QTL 1410.001body mass (VT:0001259)body weight gain (CMO:0000420)176261951686533673Rat

Markers in Region
RH143782  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21785,000,481 - 85,000,603 (-)MAPPERmRatBN7.2
Rnor_6.01790,131,524 - 90,131,645NCBIRnor6.0
Rnor_5.01791,794,933 - 91,795,054UniSTSRnor5.0
RGSC_v3.41796,494,633 - 96,494,754UniSTSRGSC3.4
Celera1783,893,747 - 83,893,868UniSTS
RH 3.4 Map17868.7UniSTS
Cytogenetic Map17q12.3UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 12 4 19 4 5
Low 1 43 45 37 37 8 11 74 35 41 6 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024272   ⟹   ENSRNOP00000024272
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1784,982,243 - 85,033,010 (+)Ensembl
Rnor_6.0 Ensembl1790,099,025 - 90,149,894 (-)Ensembl
RefSeq Acc Id: NM_001100577   ⟹   NP_001094047
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81789,891,022 - 89,941,099 (+)NCBI
mRatBN7.21784,982,941 - 85,033,020 (+)NCBI
Rnor_6.01790,098,953 - 90,149,192 (-)NCBI
Rnor_5.01791,762,064 - 91,812,342 (-)NCBI
RGSC_v3.41796,476,962 - 96,527,635 (+)RGD
Celera1783,861,327 - 83,910,596 (-)RGD
Sequence:
RefSeq Acc Id: XM_039095818   ⟹   XP_038951746
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81789,849,474 - 89,940,939 (+)NCBI
mRatBN7.21784,941,404 - 85,032,870 (+)NCBI
RefSeq Acc Id: XM_039095819   ⟹   XP_038951747
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81789,893,722 - 89,940,939 (+)NCBI
mRatBN7.21784,985,642 - 85,032,870 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001094047 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951746 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951747 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH98839 (Get FASTA)   NCBI Sequence Viewer  
  EDL83938 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024272
  ENSRNOP00000024272.6
Reference Protein Sequences
RefSeq Acc Id: NP_001094047   ⟸   NM_001100577
- UniProtKB: D3ZDZ1 (UniProtKB/TrEMBL),   A6KS00 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024272   ⟸   ENSRNOT00000024272
RefSeq Acc Id: XP_038951746   ⟸   XM_039095818
- Peptide Label: isoform X1
- UniProtKB: A6KS00 (UniProtKB/TrEMBL),   D3ZDZ1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951747   ⟸   XM_039095819
- Peptide Label: isoform X2
Protein Domains
PH   Ras-associating

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZDZ1-F1-model_v2 AlphaFold D3ZDZ1 1-664 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:1304795 AgrOrtholog
BioCyc Gene G2FUF-8485 BioCyc
Ensembl Genes ENSRNOG00000017803 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024272 ENTREZGENE
  ENSRNOT00000024272.7 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7379029 IMAGE-MGC_LOAD
InterPro GRB/APBB1IP UniProtKB/TrEMBL
  PH_APBB1IP UniProtKB/TrEMBL
  PH_like_dom UniProtKB/TrEMBL
  Pleckstrin_homology UniProtKB/TrEMBL
  Ras-assoc UniProtKB/TrEMBL
  Ubiquitin-rel_dom UniProtKB/TrEMBL
KEGG Report rno:307171 UniProtKB/TrEMBL
MGC_CLONE MGC:112894 IMAGE-MGC_LOAD
NCBI Gene 307171 ENTREZGENE
PANTHER AMYLOID BETA A4 PRECURSOR PROTEIN-BINDING FAMILY B MEMBER 1-INTERACTING PROTEIN UniProtKB/TrEMBL
  PTHR11243 UniProtKB/TrEMBL
Pfam PF00169 UniProtKB/TrEMBL
  PF00788 UniProtKB/TrEMBL
PhenoGen Apbb1ip PhenoGen
PROSITE PH_DOMAIN UniProtKB/TrEMBL
  PS50200 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017803 RatGTEx
SMART SM00233 UniProtKB/TrEMBL
  SM00314 UniProtKB/TrEMBL
Superfamily-SCOP PH domain-like UniProtKB/TrEMBL
  SSF54236 UniProtKB/TrEMBL
UniProt A6KS00 ENTREZGENE, UniProtKB/TrEMBL
  D3ZDZ1 ENTREZGENE, UniProtKB/TrEMBL
  Q4G016_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Apbb1ip  amyloid beta precursor protein binding family B member 1 interacting protein  Apbb1ip  amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Apbb1ip  amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein  Apbb1ip_predicted  amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Apbb1ip_predicted  amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein (predicted)      Symbol and Name status set to approved 70820 APPROVED