Atat1 (alpha tubulin acetyltransferase 1) - Rat Genome Database
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Gene: Atat1 (alpha tubulin acetyltransferase 1) Rattus norvegicus
Analyze
Symbol: Atat1
Name: alpha tubulin acetyltransferase 1
RGD ID: 1303066
Description: Predicted to have lysine N-acetyltransferase activity, acting on acetyl phosphate as donor and tubulin N-acetyltransferase activity. Predicted to be involved in several processes, including alpha-tubulin acetylation; dentate gyrus development; and positive regulation of NLRP3 inflammasome complex assembly. Predicted to localize to Golgi apparatus; cytoskeleton; and cytosol. Orthologous to human ATAT1 (alpha tubulin acetyltransferase 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 3110080J08Rik; acetyltransferase MEC-17; acetyltransferase mec-17 homolog; alpha-TAT; alpha-TAT1; alpha-tubulin N-acetyltransferase; alpha-tubulin N-acetyltransferase 1; FLJ13158; hypothetical protein FLJ13158; hypothetical protein LOC361789; Mec17; RGD1303066; similar to RIKEN cDNA 2610110G12; TAT
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
Rnor_6.0203,351,269 - 3,364,565 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,351,303 - 3,364,565 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,448,793 - 5,462,088 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4202,992,405 - 3,005,364 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1202,992,631 - 3,005,583 (+)NCBI
Celera20270,616 - 283,574 (+)NCBICelera
Cytogenetic Map20p12NCBI
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

References

Additional References at PubMed
PMID:12477932   PMID:16751776   PMID:20829795   PMID:22972992   PMID:23071314   PMID:23126280   PMID:23502856   PMID:23720746   PMID:23748901   PMID:24906155   PMID:26700226   PMID:27314403  
PMID:28505206  


Genomics

Comparative Map Data
Atat1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0203,351,269 - 3,364,565 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,351,303 - 3,364,565 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,448,793 - 5,462,088 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4202,992,405 - 3,005,364 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1202,992,631 - 3,005,583 (+)NCBI
Celera20270,616 - 283,574 (+)NCBICelera
Cytogenetic Map20p12NCBI
ATAT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl630,626,842 - 30,646,823 (+)EnsemblGRCh38hg38GRCh38
GRCh38630,626,874 - 30,646,821 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37630,594,613 - 30,614,598 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36630,702,632 - 30,722,577 (+)NCBINCBI36hg18NCBI36
Build 34630,702,631 - 30,720,425NCBI
Celera632,192,731 - 32,212,715 (+)NCBI
Cytogenetic Map6p21.33NCBI
HuRef630,394,781 - 30,414,765 (+)NCBIHuRef
CHM1_1630,596,729 - 30,616,708 (+)NCBICHM1_1
Atat1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391736,208,487 - 36,220,971 (-)NCBIGRCm39mm39
GRCm381735,897,595 - 35,910,086 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,897,595 - 35,910,075 (-)EnsemblGRCm38mm10GRCm38
MGSCv371736,034,540 - 36,047,013 (-)NCBIGRCm37mm9NCBIm37
MGSCv361735,507,905 - 35,518,098 (-)NCBImm8
Celera1739,406,855 - 39,419,330 (-)NCBICelera
Cytogenetic Map17B1NCBI
Atat1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955583643,575 - 652,393 (+)NCBIChiLan1.0ChiLan1.0
ATAT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1631,238,771 - 31,261,795 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl631,238,778 - 31,261,611 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0630,368,847 - 30,391,595 (+)NCBIMhudiblu_PPA_v0panPan3
ATAT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl12441,895 - 456,152 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.112441,847 - 456,349 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Atat1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936837300,765 - 319,742 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATAT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl723,166,304 - 23,185,458 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1723,173,138 - 23,185,463 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2726,895,036 - 26,907,375 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATAT1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1741,807,291 - 41,830,000 (-)Ensembl
ChlSab1.11741,807,405 - 41,830,670 (-)NCBI
Atat1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475425,058,312 - 25,069,052 (-)NCBI

Position Markers
BE117058  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0203,362,236 - 3,362,385NCBIRnor6.0
Rnor_5.0205,459,759 - 5,459,908UniSTSRnor5.0
RGSC_v3.4203,003,338 - 3,003,487UniSTSRGSC3.4
Celera20281,548 - 281,697UniSTS
Cytogenetic Map20p12UniSTS
RH 3.4 Map51157.1UniSTS
RH128043  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0203,350,651 - 3,350,831NCBIRnor6.0
Rnor_5.0205,448,174 - 5,448,354UniSTSRnor5.0
RGSC_v3.4202,991,753 - 2,991,933UniSTSRGSC3.4
Celera20269,964 - 270,144UniSTS
Cytogenetic Map20p12UniSTS
RH 3.4 Map2015.8UniSTS
AI548047  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0203,364,336 - 3,364,499NCBIRnor6.0
Rnor_5.0205,461,859 - 5,462,022UniSTSRnor5.0
RGSC_v3.4203,005,135 - 3,005,298UniSTSRGSC3.4
Celera20283,345 - 283,508UniSTS
Cytogenetic Map20p12UniSTS
RH 3.4 Map2052.1UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2015192000Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124652101Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125653396Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20127357423Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20128375393Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20128375393Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20128375393Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20128375393Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20128375393Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2020187706567419Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2031518156896013Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2031518156896013Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:22
Count of miRNA genes:22
Interacting mature miRNAs:22
Transcripts:ENSRNOT00000001065
Prediction methods: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.


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 20 4 4 2 4 66 20 33 1
Low 3 23 53 37 17 37 6 9 8 15 8 10 6
Below cutoff 2 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000001065   ⟹   ENSRNOP00000001065
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,303 - 3,364,565 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078758
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,359,963 - 3,360,423 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079253
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,317 - 3,359,172 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079654   ⟹   ENSRNOP00000073934
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,363,737 - 3,364,564 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079738
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,899 - 3,360,095 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000080158
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,305 - 3,362,430 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000080419   ⟹   ENSRNOP00000074047
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,303 - 3,364,557 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082342
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,363,639 - 3,364,012 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082345
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,646 - 3,352,710 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000086216
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,360,990 - 3,361,703 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000086503   ⟹   ENSRNOP00000075030
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,304 - 3,364,565 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000087295
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,363,676 - 3,364,565 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089667
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,305 - 3,362,388 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090225
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,363,852 - 3,364,565 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000091735
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,351,517 - 3,352,689 (+)Ensembl
RefSeq Acc Id: NM_212498   ⟹   NP_997663
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,351,303 - 3,364,565 (+)NCBI
Rnor_5.0205,448,793 - 5,462,088 (+)NCBI
RGSC_v3.4202,992,405 - 3,005,364 (+)RGD
Celera20270,616 - 283,574 (+)RGD
Sequence:
RefSeq Acc Id: XM_006255950   ⟹   XP_006256012
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,351,270 - 3,362,387 (+)NCBI
Rnor_5.0205,448,793 - 5,462,088 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006255951   ⟹   XP_006256013
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,351,270 - 3,362,387 (+)NCBI
Rnor_5.0205,448,793 - 5,462,088 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601673   ⟹   XP_017457162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,351,269 - 3,364,565 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601674   ⟹   XP_017457163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,351,269 - 3,364,550 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601675   ⟹   XP_017457164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,351,269 - 3,362,387 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_997663   ⟸   NM_212498
- UniProtKB: Q6MG11 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006256012   ⟸   XM_006255950
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006256013   ⟸   XM_006255951
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017457162   ⟸   XM_017601673
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457163   ⟸   XM_017601674
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017457164   ⟸   XM_017601675
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000074047   ⟸   ENSRNOT00000080419
RefSeq Acc Id: ENSRNOP00000073934   ⟸   ENSRNOT00000079654
RefSeq Acc Id: ENSRNOP00000075030   ⟸   ENSRNOT00000086503
RefSeq Acc Id: ENSRNOP00000001065   ⟸   ENSRNOT00000001065
Protein Domains
N-acetyltransferase

Transcriptome

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

Promoters
RGD ID:13701299
Promoter ID:EPDNEW_R11819
Type:multiple initiation site
Name:Atat1_1
Description:alpha tubulin acetyltransferase 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_6.0203,351,291 - 3,351,351EPDNEW

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)
Visual CSV TAB Printer
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)
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
F344/NRrrc (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
FHH/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)
FHH/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
FHL/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)
FHL/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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 5458275 5458276 G A snv LH/MavRrrc (KNAW), LN/MavRrrc (KNAW), BUF/N (KNAW), LE/Stm (KyushuU), LE/Stm (SOLiD) (KNAW), M520/N (KNAW), LE/Stm (Illumina) (KNAW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3360752 3360753 G A snv Buf/N (MCW), LN/MavRrrc (RGD), LH/MavRrrc (RGD), LE/Stm (RGD)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3001854 3001855 G A snv BUF/N (KNAW), LE/Stm (KNAW), LE/Stm (ICL), LCR/2Mco (UMich), LN/MavRrrc (ICL), HCR/2Mco (UMich), LH/MavRrrc (ICL)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1303066 AgrOrtholog
Ensembl Genes ENSRNOG00000000809 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000001065 UniProtKB/Swiss-Prot
  ENSRNOP00000073934 UniProtKB/TrEMBL
  ENSRNOP00000074047 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000075030 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001065 UniProtKB/Swiss-Prot
  ENSRNOT00000079654 UniProtKB/TrEMBL
  ENSRNOT00000080158 ENTREZGENE
  ENSRNOT00000080419 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000086503 UniProtKB/TrEMBL
  ENSRNOT00000089667 ENTREZGENE
InterPro Atat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GNAT_ATAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:361789 UniProtKB/Swiss-Prot
NCBI Gene 361789 ENTREZGENE
PANTHER PTHR12327 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Acetyltransf_16 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Atat1 PhenoGen
PROSITE GNAT_ATAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.136935 ENTREZGENE
UniProt A0A0G2K6T3_RAT UniProtKB/TrEMBL
  A0A0G2K9K5_RAT UniProtKB/TrEMBL
  ATAT_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-05-26 Atat1  alpha tubulin acetyltransferase 1  RGD1303066  similar to RIKEN cDNA 2610110G12  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 RGD1303066  similar to RIKEN cDNA 2610110G12  FLJ13158  hypothetical protein FLJ13158  Symbol and Name updated 1299863 APPROVED
2005-09-30 FLJ13158        Symbol and Name status set to provisional 70820 PROVISIONAL