Abi1 (abl-interactor 1) - Rat Genome Database

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Gene: Abi1 (abl-interactor 1) Rattus norvegicus
Analyze
Symbol: Abi1
Name: abl-interactor 1
RGD ID: 621008
Description: Exhibits transcription factor binding activity. Involved in postsynapse to nucleus signaling pathway. Localizes to glutamatergic synapse and postsynaptic density. Orthologous to human ABI1 (abl interactor 1); PARTICIPATES IN E-cadherin signaling pathway; platelet-derived growth factor signaling pathway; INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 3,3',5,5'-tetrabromobisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: abelson interactor 1; abi-1; abl interactor 1; E3b1; eps8 binding protein (e3B1), alternatively spliced; eps8 SH3 domain-binding protein; eps8-binding protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21785,098,837 - 85,179,829 (-)NCBI
Rnor_6.0 Ensembl1789,951,752 - 90,033,328 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01789,951,662 - 90,033,334 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01791,617,052 - 91,698,739 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41796,576,331 - 96,648,752 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11796,587,163 - 96,659,522 (-)NCBI
Celera1783,715,811 - 83,796,579 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10995551   PMID:11516653   PMID:12477932   PMID:12672821   PMID:15755804   PMID:16831833   PMID:17101133   PMID:17664349   PMID:18560548   PMID:19056867   PMID:19200726   PMID:19798448  
PMID:21107423   PMID:21464958   PMID:21795692   PMID:25297099   PMID:25468996   PMID:30053369  


Genomics

Comparative Map Data
Abi1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21785,098,837 - 85,179,829 (-)NCBI
Rnor_6.0 Ensembl1789,951,752 - 90,033,328 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01789,951,662 - 90,033,334 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01791,617,052 - 91,698,739 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41796,576,331 - 96,648,752 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11796,587,163 - 96,659,522 (-)NCBI
Celera1783,715,811 - 83,796,579 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
ABI1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1026,746,593 - 26,861,087 (-)EnsemblGRCh38hg38GRCh38
GRCh381026,746,596 - 26,860,986 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371027,035,525 - 27,149,887 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361027,075,531 - 27,189,965 (-)NCBINCBI36hg18NCBI36
Celera1026,743,902 - 26,858,351 (-)NCBI
Cytogenetic Map10p12.1NCBI
HuRef1026,695,811 - 26,810,376 (-)NCBIHuRef
CHM1_11027,032,979 - 27,149,984 (-)NCBICHM1_1
Abi1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39222,830,085 - 22,930,275 (-)NCBIGRCm39mm39
GRCm39 Ensembl222,830,085 - 22,930,253 (-)Ensembl
GRCm38222,940,073 - 23,040,241 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl222,940,073 - 23,040,241 (-)EnsemblGRCm38mm10GRCm38
MGSCv37222,795,509 - 22,895,760 (-)NCBIGRCm37mm9NCBIm37
MGSCv36222,772,161 - 22,862,244 (-)NCBImm8
Celera222,671,348 - 22,771,879 (-)NCBICelera
Cytogenetic Map2A3NCBI
cM Map215.18NCBI
Abi1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554292,682,343 - 2,783,752 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554292,682,341 - 2,783,752 (+)NCBIChiLan1.0ChiLan1.0
ABI1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11027,227,960 - 27,339,434 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1027,227,960 - 27,339,434 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01026,863,648 - 26,975,376 (-)NCBIMhudiblu_PPA_v0panPan3
ABI1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.126,941,752 - 7,059,466 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl26,941,900 - 7,057,684 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha25,695,050 - 5,812,623 (+)NCBI
ROS_Cfam_1.025,131,485 - 5,249,349 (+)NCBI
UMICH_Zoey_3.124,508,861 - 4,626,433 (+)NCBI
UNSW_CanFamBas_1.024,587,702 - 4,705,303 (+)NCBI
UU_Cfam_GSD_1.024,752,811 - 4,870,263 (+)NCBI
Abi1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934425,925,448 - 26,028,891 (-)NCBI
SpeTri2.0NW_0049364842,090,605 - 2,194,109 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABI1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1048,939,445 - 49,069,445 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11048,939,407 - 49,069,269 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ABI1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1926,377,822 - 26,495,665 (-)NCBI
ChlSab1.1 Ensembl926,379,516 - 26,495,676 (-)Ensembl
Vero_WHO_p1.0NW_02366605132,373,606 - 32,493,129 (-)NCBI
Abi1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247962,312,005 - 2,431,284 (+)NCBI

Position Markers
D17Rat51  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21785,119,450 - 85,119,583 (-)MAPPER
Rnor_6.01790,012,592 - 90,012,722NCBIRnor6.0
Rnor_5.01791,677,997 - 91,678,127UniSTSRnor5.0
RGSC_v3.41796,587,775 - 96,587,905UniSTSRGSC3.4
RGSC_v3.41796,587,774 - 96,587,905RGDRGSC3.4
RGSC_v3.11796,598,608 - 96,598,738RGD
Celera1783,775,845 - 83,775,971UniSTS
RH 3.4 Map17848.7RGD
RH 3.4 Map17848.7UniSTS
RH 2.0 Map17730.2RGD
SHRSP x BN Map1747.5399RGD
FHH x ACI Map1768.73RGD
Cytogenetic Map17q12.3UniSTS
RH127345  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21785,099,165 - 85,099,348 (-)MAPPER
Rnor_6.01790,032,823 - 90,033,005NCBIRnor6.0
Rnor_5.01791,698,228 - 91,698,410UniSTSRnor5.0
Celera1783,796,068 - 83,796,250UniSTS
RH 3.4 Map17841.2UniSTS
Cytogenetic Map17q12.3UniSTS
RH137994  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21785,176,056 - 85,176,305 (-)MAPPER
Rnor_6.01789,955,200 - 89,955,448NCBIRnor6.0
Rnor_5.01791,620,605 - 91,620,853UniSTSRnor5.0
RGSC_v3.41796,645,056 - 96,645,304UniSTSRGSC3.4
Celera1783,719,259 - 83,719,507UniSTS
RH 3.4 Map17863.7UniSTS
Cytogenetic Map17q12.3UniSTS
AI009242  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21785,145,642 - 85,145,846 (-)MAPPER
Rnor_6.01789,986,322 - 89,986,525NCBIRnor6.0
Rnor_5.01791,651,727 - 91,651,930UniSTSRnor5.0
RGSC_v3.41796,614,187 - 96,614,390UniSTSRGSC3.4
Celera1783,749,643 - 83,749,846UniSTS
RH 3.4 Map17844.3UniSTS
Cytogenetic Map17q12.3UniSTS
AU049482  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21785,171,263 - 85,171,421 (-)MAPPER
Rnor_6.01789,960,404 - 89,960,561NCBIRnor6.0
Rnor_5.01791,625,809 - 91,625,966UniSTSRnor5.0
RGSC_v3.41796,639,806 - 96,639,963UniSTSRGSC3.4
Celera1783,724,076 - 83,724,236UniSTS
Cytogenetic Map17q12.3UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)175241095790843779Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)175241095790843779Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175347518090690466Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)175387148890843779Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175399194790843779Rat
7411577Bw141Body weight QTL 1410.001body mass (VT:0001259)body weight gain (CMO:0000420)176751265790843779Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:224
Count of miRNA genes:145
Interacting mature miRNAs:188
Transcripts:ENSRNOT00000057572
Prediction methods:Miranda, Pita, Pita,Targetscan, 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.


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 3 42 57 41 19 41 8 9 74 35 38 11 8
Low 1 2 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_024397 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096101 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096102 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096104 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF176784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC129092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB725283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474100 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000294 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000057572   ⟹   ENSRNOP00000054381
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1789,951,752 - 90,033,328 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000091023   ⟹   ENSRNOP00000071079
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1789,951,815 - 90,032,186 (+)Ensembl
RefSeq Acc Id: NM_024397   ⟹   NP_077373
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,753 (-)NCBI
Rnor_6.01789,951,752 - 90,033,334 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
RGSC_v3.41796,576,331 - 96,648,752 (-)RGD
Celera1783,715,811 - 83,796,579 (+)RGD
Sequence:
RefSeq Acc Id: XM_006254353   ⟹   XP_006254415
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,825 (-)NCBI
Rnor_6.01789,951,681 - 90,033,158 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254354   ⟹   XP_006254416
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,825 (-)NCBI
Rnor_6.01789,951,681 - 90,033,158 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254355   ⟹   XP_006254417
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,825 (-)NCBI
Rnor_6.01789,951,681 - 90,033,158 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254356   ⟹   XP_006254418
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,824 (-)NCBI
Rnor_6.01789,951,681 - 90,033,158 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254357   ⟹   XP_006254419
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,825 (-)NCBI
Rnor_6.01789,951,681 - 90,033,158 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254358   ⟹   XP_006254420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,824 (-)NCBI
Rnor_6.01789,951,682 - 90,033,158 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254359   ⟹   XP_006254421
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,824 (-)NCBI
Rnor_6.01789,951,682 - 90,033,158 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254360   ⟹   XP_006254422
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,829 (-)NCBI
Rnor_6.01789,951,662 - 90,033,158 (+)NCBI
Rnor_5.01791,617,052 - 91,698,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039096101   ⟹   XP_038952029
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,825 (-)NCBI
RefSeq Acc Id: XM_039096102   ⟹   XP_038952030
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,179,825 (-)NCBI
RefSeq Acc Id: XM_039096103   ⟹   XP_038952031
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,098,837 - 85,158,169 (-)NCBI
RefSeq Acc Id: XM_039096104   ⟹   XP_038952032
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21785,103,829 - 85,179,825 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_077373   ⟸   NM_024397
- UniProtKB: A2VD09 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006254422   ⟸   XM_006254360
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_006254418   ⟸   XM_006254356
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006254415   ⟸   XM_006254353
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006254420   ⟸   XM_006254358
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006254416   ⟸   XM_006254354
- Peptide Label: isoform X2
- UniProtKB: Q9QZM5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006254417   ⟸   XM_006254355
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006254419   ⟸   XM_006254357
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006254421   ⟸   XM_006254359
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: ENSRNOP00000054381   ⟸   ENSRNOT00000057572
RefSeq Acc Id: ENSRNOP00000071079   ⟸   ENSRNOT00000091023
RefSeq Acc Id: XP_038952029   ⟸   XM_039096101
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038952030   ⟸   XM_039096102
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038952031   ⟸   XM_039096103
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038952032   ⟸   XM_039096104
- Peptide Label: isoform X11
Protein Domains
SH3   t-SNARE coiled-coil homology

Transcriptome

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

Promoters
RGD ID:13700617
Promoter ID:EPDNEW_R11140
Type:initiation region
Name:Abi1_1
Description:abl-interactor 1
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_6.01789,951,725 - 89,951,785EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621008 AgrOrtholog
Ensembl Genes ENSRNOG00000031325 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000054381 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071079 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000057572 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000091023 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7192971 IMAGE-MGC_LOAD
InterPro ABI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABI1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Abi1_SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Abl-interactor_HHR_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  T_SNARE_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:79249 UniProtKB/TrEMBL
MGC_CLONE MGC:156634 IMAGE-MGC_LOAD
NCBI Gene 79249 ENTREZGENE
PANTHER PTHR10460 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10460:SF2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Abi_HHR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Abi1 PhenoGen
PRINTS SH3DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  T_SNARE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A2VD09 ENTREZGENE, UniProtKB/TrEMBL
  ABI1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Abi1  abl-interactor 1    eps8 binding protein (e3B1), alternatively spliced  Name updated 1299863 APPROVED
2002-08-07 Abi1  eps8 binding protein (e3B1), alternatively spliced      Symbol and Name status set to provisional 70820 PROVISIONAL