Tacc1 (transforming, acidic coiled-coil containing protein 1) - Rat Genome Database

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Gene: Tacc1 (transforming, acidic coiled-coil containing protein 1) Rattus norvegicus
Analyze
Symbol: Tacc1
Name: transforming, acidic coiled-coil containing protein 1
RGD ID: 1303120
Description: Predicted to have several functions, including nuclear hormone receptor binding activity; nuclear receptor coactivator activity; and peroxisome proliferator activated receptor binding activity. Predicted to be involved in microtubule cytoskeleton organization; nervous system development; and regulation of microtubule-based process. Predicted to localize to cytosol. Orthologous to human TACC1 (transforming acidic coiled-coil containing protein 1); INTERACTS WITH 1,2-dimethylhydrazine; 2,4-dinitrotoluene; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Tacc1a; transforming acidic coiled-coil-containing protein 1; transforming, acidic coiled-coil containing protein 1a
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
mRatBN7.21666,812,232 - 66,895,736 (+)NCBI
Rnor_6.0 Ensembl1671,629,525 - 71,681,126 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01671,596,970 - 71,681,126 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01671,252,762 - 71,335,563 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41671,241,785 - 71,304,959 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11671,242,049 - 71,305,224 (+)NCBI
Celera1664,752,412 - 64,802,875 (+)NCBICelera
Cytogenetic Map16q12.4NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,4-methylenedioxymethamphetamine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acetamide  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
Aroclor 1254  (ISO)
arsenous acid  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-hexachlorocyclohexane  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cocaine  (EXP)
copper(II) sulfate  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
ethanol  (ISO)
fulvestrant  (ISO)
furan  (EXP)
genistein  (ISO)
hydrogen peroxide  (ISO)
indometacin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
menadione  (ISO)
mercury dibromide  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
propiconazole  (ISO)
raloxifene  (ISO)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium dichromate  (EXP)
tamoxifen  (ISO)
torcetrapib  (ISO)
trichostatin A  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vorinostat  (ISO)

References

Additional References at PubMed
PMID:8889548   PMID:16778019   PMID:17920017   PMID:20078863  


Genomics

Comparative Map Data
Tacc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21666,812,232 - 66,895,736 (+)NCBI
Rnor_6.0 Ensembl1671,629,525 - 71,681,126 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01671,596,970 - 71,681,126 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01671,252,762 - 71,335,563 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41671,241,785 - 71,304,959 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11671,242,049 - 71,305,224 (+)NCBI
Celera1664,752,412 - 64,802,875 (+)NCBICelera
Cytogenetic Map16q12.4NCBI
TACC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl838,728,186 - 38,853,028 (+)EnsemblGRCh38hg38GRCh38
GRCh38838,728,205 - 38,853,028 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37838,586,100 - 38,710,546 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36838,763,938 - 38,829,703 (+)NCBINCBI36hg18NCBI36
Build 34838,763,937 - 38,829,702NCBI
Celera837,539,007 - 37,663,880 (+)NCBI
Cytogenetic Map8p11.22NCBI
HuRef837,121,058 - 37,245,998 (+)NCBIHuRef
CHM1_1838,787,711 - 38,912,550 (+)NCBICHM1_1
Tacc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39825,644,568 - 25,746,440 (-)NCBIGRCm39mm39
GRCm39 Ensembl825,644,568 - 25,746,604 (-)Ensembl
GRCm38825,154,552 - 25,256,424 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl825,154,552 - 25,256,588 (-)EnsemblGRCm38mm10GRCm38
MGSCv37826,265,024 - 26,311,921 (-)NCBIGRCm37mm9NCBIm37
MGSCv36826,620,097 - 26,666,994 (-)NCBImm8
Celera826,621,682 - 26,668,549 (-)NCBICelera
Cytogenetic Map8A2NCBI
Tacc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546314,344,010 - 14,405,174 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546314,314,201 - 14,409,848 (+)NCBIChiLan1.0ChiLan1.0
TACC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1835,205,047 - 35,329,134 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl835,219,219 - 35,329,134 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0838,029,394 - 38,154,189 (+)NCBIMhudiblu_PPA_v0panPan3
TACC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11626,677,717 - 26,797,236 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1626,682,327 - 26,797,937 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1627,198,235 - 27,317,459 (-)NCBI
ROS_Cfam_1.01628,508,867 - 28,628,253 (-)NCBI
UMICH_Zoey_3.11626,802,061 - 26,891,394 (-)NCBI
UNSW_CanFamBas_1.01627,379,067 - 27,498,300 (-)NCBI
UU_Cfam_GSD_1.01627,417,631 - 27,537,073 (-)NCBI
Tacc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494349,303,964 - 49,391,262 (-)NCBI
SpeTri2.0NW_0049367102,042,671 - 2,157,249 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TACC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11547,749,079 - 47,861,200 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21554,862,923 - 54,911,509 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TACC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1836,752,966 - 36,871,609 (+)NCBI
ChlSab1.1 Ensembl836,774,647 - 36,866,586 (+)Ensembl
Vero_WHO_p1.0NW_0236660525,108,644 - 5,235,356 (-)NCBI
Tacc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247804,769,270 - 4,886,475 (-)NCBI

Position Markers
D16Got66  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21666,858,880 - 66,859,095 (+)MAPPER
Rnor_6.01671,643,358 - 71,643,572NCBIRnor6.0
Rnor_5.01671,298,290 - 71,298,504UniSTSRnor5.0
RGSC_v3.41671,267,882 - 71,268,097RGDRGSC3.4
RGSC_v3.41671,267,883 - 71,268,097UniSTSRGSC3.4
RGSC_v3.11671,268,148 - 71,268,362RGD
Celera1664,766,097 - 64,766,311UniSTS
RH 3.4 Map16628.4UniSTS
RH 3.4 Map16628.4RGD
RH 2.0 Map16739.6RGD
Cytogenetic Map16q12.4UniSTS
BE113007  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21666,894,770 - 66,894,927 (+)MAPPER
Rnor_6.01671,680,164 - 71,680,320NCBIRnor6.0
Rnor_5.01671,334,601 - 71,334,757UniSTSRnor5.0
RGSC_v3.41671,303,996 - 71,304,152UniSTSRGSC3.4
Celera1664,801,913 - 64,802,069UniSTS
RH 3.4 Map16624.3UniSTS
Cytogenetic Map16q12.4UniSTS
AA956912  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21666,894,383 - 66,894,512 (+)MAPPER
Rnor_6.01671,679,777 - 71,679,905NCBIRnor6.0
Rnor_5.01671,334,214 - 71,334,342UniSTSRnor5.0
RGSC_v3.41671,303,609 - 71,303,737UniSTSRGSC3.4
Celera1664,801,526 - 64,801,654UniSTS
RH 3.4 Map16632.8UniSTS
Cytogenetic Map16q12.4UniSTS
AI008689  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21666,895,245 - 66,895,407 (+)MAPPER
Rnor_6.01671,680,639 - 71,680,800NCBIRnor6.0
Rnor_5.01671,335,076 - 71,335,237UniSTSRnor5.0
RGSC_v3.41671,304,472 - 71,304,633UniSTSRGSC3.4
Celera1664,802,388 - 64,802,549UniSTS
RH 3.4 Map16624.5UniSTS
Cytogenetic Map16q12.4UniSTS
RH132384  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21666,869,351 - 66,869,552 (+)MAPPER
Rnor_6.01671,653,829 - 71,654,029NCBIRnor6.0
Rnor_5.01671,308,761 - 71,308,961UniSTSRnor5.0
RGSC_v3.41671,278,231 - 71,278,431UniSTSRGSC3.4
Celera1664,776,568 - 64,776,768UniSTS
RH 3.4 Map16633.2UniSTS
Cytogenetic Map16q12.4UniSTS
RH137203  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21666,894,905 - 66,895,447 (+)MAPPER
Rnor_6.01671,680,299 - 71,680,840NCBIRnor6.0
Rnor_5.01671,334,736 - 71,335,277UniSTSRnor5.0
RGSC_v3.41671,304,131 - 71,304,673UniSTSRGSC3.4
Celera1664,802,048 - 64,802,589UniSTS
RH 3.4 Map16631.6UniSTS
Cytogenetic Map16q12.4UniSTS
RH140240  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21666,894,491 - 66,894,677 (+)MAPPER
Rnor_6.01671,679,885 - 71,680,070NCBIRnor6.0
Rnor_5.01671,334,322 - 71,334,507UniSTSRnor5.0
RGSC_v3.41671,303,717 - 71,303,902UniSTSRGSC3.4
Celera1664,801,634 - 64,801,819UniSTS
RH 3.4 Map16623.2UniSTS
Cytogenetic Map16q12.4UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)16109005486162972Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)162075555680316424Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162751998072519980Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162834031573340315Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163900002184000021Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164151271086512710Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164151271086512710Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164655818890668790Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165781635790668790Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165781635790668790Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165781635790668790Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165928577589248943Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:613
Count of miRNA genes:274
Interacting mature miRNAs:358
Transcripts:ENSRNOT00000035347
Prediction methods:Miranda, 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 43 38 22 19 22 2 2 74 35 41 11 2
Low 19 19 19 6 9 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000035347   ⟹   ENSRNOP00000030626
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1671,629,525 - 71,681,126 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088462   ⟹   ENSRNOP00000075027
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1671,629,659 - 71,676,254 (+)Ensembl
RefSeq Acc Id: NM_001004107   ⟹   NP_001004107
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,845,041 - 66,895,733 (+)NCBI
Rnor_6.01671,629,525 - 71,681,126 (+)NCBI
Rnor_5.01671,252,762 - 71,335,563 (+)NCBI
RGSC_v3.41671,241,785 - 71,304,959 (+)RGD
Celera1664,752,412 - 64,802,875 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006253318   ⟹   XP_006253380
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,840,914 - 66,895,736 (+)NCBI
Rnor_6.01671,629,749 - 71,681,126 (+)NCBI
Rnor_5.01671,252,762 - 71,335,563 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600145   ⟹   XP_017455634
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,840,885 - 66,895,736 (+)NCBI
Rnor_6.01671,629,749 - 71,681,126 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600146   ⟹   XP_017455635
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,812,376 - 66,895,736 (+)NCBI
Rnor_6.01671,596,970 - 71,681,126 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039094559   ⟹   XP_038950487
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,812,378 - 66,895,736 (+)NCBI
RefSeq Acc Id: XM_039094560   ⟹   XP_038950488
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,858,810 - 66,895,736 (+)NCBI
RefSeq Acc Id: XM_039094561   ⟹   XP_038950489
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,812,232 - 66,895,736 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001004107   ⟸   NM_001004107
- UniProtKB: D4A927 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253380   ⟸   XM_006253318
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017455635   ⟸   XM_017600146
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017455634   ⟸   XM_017600145
- Peptide Label: isoform X3
- UniProtKB: A0A0G2K9K2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000030626   ⟸   ENSRNOT00000035347
RefSeq Acc Id: ENSRNOP00000075027   ⟸   ENSRNOT00000088462
RefSeq Acc Id: XP_038950489   ⟸   XM_039094561
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038950487   ⟸   XM_039094559
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038950488   ⟸   XM_039094560
- Peptide Label: isoform X4
Protein Domains
TACC_C

Transcriptome

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

Promoters
RGD ID:13700172
Promoter ID:EPDNEW_R10696
Type:initiation region
Name:Tacc1_1
Description:transforming, acidic coiled-coil containing protein 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_6.01671,629,516 - 71,629,576EPDNEW

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)
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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)
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
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:1303120 AgrOrtholog
Ensembl Genes ENSRNOG00000016423 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000030626 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075027 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000035347 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000088462 UniProtKB/TrEMBL
InterPro Alp7/TACC UniProtKB/TrEMBL
  TACC UniProtKB/TrEMBL
KEGG Report rno:306562 UniProtKB/TrEMBL
NCBI Gene 306562 ENTREZGENE
PANTHER PTHR13924 UniProtKB/TrEMBL
Pfam TACC UniProtKB/TrEMBL
PhenoGen Tacc1 PhenoGen
UniProt A0A0G2K9K2 ENTREZGENE, UniProtKB/TrEMBL
  D4A927 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Tacc1  transforming, acidic coiled-coil containing protein 1  Tacc1a  transforming, acidic coiled-coil containing protein 1a  Symbol and Name updated 1299863 APPROVED
2005-02-14 Tacc1a  transforming, acidic coiled-coil containing protein 1a      Symbol and Name status set to provisional 70820 PROVISIONAL