Ttc3 (tetratricopeptide repeat domain 3) - Rat Genome Database
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Gene: Ttc3 (tetratricopeptide repeat domain 3) Rattus norvegicus
Analyze
Symbol: Ttc3
Name: tetratricopeptide repeat domain 3
RGD ID: 1308654
Description: Predicted to have ubiquitin-protein transferase activity. Predicted to be involved in cellular protein metabolic process and negative regulation of cell differentiation. Predicted to localize to cytosol; nuclear lumen; and vacuole. Orthologous to human TTC3 (tetratricopeptide repeat domain 3); INTERACTS WITH 3H-1,2-dithiole-3-thione; bisphenol A; chloroprene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: E3 ubiquitin-protein ligase TTC3; LOC360702; RING-type E3 ubiquitin transferase TTC3; TPR repeat protein D
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
mRatBN7.21133,689,119 - 33,788,976 (+)NCBI
Rnor_6.0 Ensembl1134,598,492 - 34,738,791 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01134,598,324 - 34,739,986 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01138,186,073 - 38,331,635 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41134,617,072 - 34,659,043 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11134,673,302 - 34,715,290 (+)NCBI
Celera1134,661,453 - 34,760,646 (-)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-methylcholanthrene  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-vinylcyclohexene dioxide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
chloroprene  (EXP)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dibutyl phthalate  (ISO)
disodium selenite  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
gamma-tocopherol  (ISO)
geldanamycin  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
menadione  (ISO)
methylmercury chloride  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
nefazodone  (EXP)
okadaic acid  (ISO)
paracetamol  (ISO)
PCB138  (ISO)
pentachlorophenol  (ISO)
phenobarbital  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
poly(I:C)  (EXP)
propiconazole  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
succimer  (ISO)
tamibarotene  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone enanthate  (ISO)
tetrachloroethene  (ISO)
theophylline  (ISO)
tocopherol  (ISO)
torcetrapib  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (IEA,ISO)
Golgi apparatus  (IEA)
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (ISO)
vacuole  (ISO)

Molecular Function

References

Additional References at PubMed
PMID:17488780   PMID:20059950   PMID:24695496  


Genomics

Comparative Map Data
Ttc3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21133,689,119 - 33,788,976 (+)NCBI
Rnor_6.0 Ensembl1134,598,492 - 34,738,791 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01134,598,324 - 34,739,986 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01138,186,073 - 38,331,635 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41134,617,072 - 34,659,043 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11134,673,302 - 34,715,290 (+)NCBI
Celera1134,661,453 - 34,760,646 (-)NCBICelera
Cytogenetic Map11q11NCBI
TTC3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2137,073,226 - 37,203,112 (+)EnsemblGRCh38hg38GRCh38
GRCh382137,073,235 - 37,203,118 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372138,445,554 - 38,575,419 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362137,367,441 - 37,497,278 (+)NCBINCBI36hg18NCBI36
Build 342137,377,116 - 37,497,276NCBI
Celera2123,643,936 - 23,773,795 (+)NCBI
Cytogenetic Map21q22.13NCBI
HuRef2123,921,184 - 24,051,240 (+)NCBIHuRef
CHM1_12138,007,231 - 38,137,173 (+)NCBICHM1_1
Ttc3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391694,171,479 - 94,270,081 (+)NCBIGRCm39mm39
GRCm39 Ensembl1694,171,477 - 94,270,202 (+)Ensembl
GRCm381694,370,625 - 94,469,222 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1694,370,618 - 94,469,343 (+)EnsemblGRCm38mm10GRCm38
MGSCv371694,592,346 - 94,690,828 (+)NCBIGRCm37mm9NCBIm37
MGSCv361694,492,710 - 94,578,019 (+)NCBImm8
Celera1695,457,930 - 95,557,093 (+)NCBICelera
Cytogenetic Map16C4NCBI
cM Map1655.18NCBI
Ttc3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540736,175,312 - 36,307,250 (+)NCBIChiLan1.0ChiLan1.0
TTC3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12136,789,699 - 36,919,061 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2136,803,826 - 36,917,527 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02123,435,041 - 23,564,416 (+)NCBIMhudiblu_PPA_v0panPan3
TTC3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl3132,213,438 - 32,347,195 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.13132,239,895 - 32,348,182 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ttc3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365005,604,783 - 5,724,121 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTC3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13200,694,616 - 200,821,912 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113200,695,624 - 200,821,920 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213210,785,849 - 210,901,277 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TTC3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1281,048,675 - 81,168,315 (+)NCBI
Ttc3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474526,446,014 - 26,565,998 (-)NCBI

Position Markers
BF406168  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11q11UniSTS
Ttc3  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01134,693,712 - 34,693,970NCBIRnor6.0
Rnor_5.01138,285,118 - 38,285,376UniSTSRnor5.0
Celera1134,688,396 - 34,688,654UniSTS
Cytogenetic Map11q11UniSTS
RH133110  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11q11UniSTS
RH133719  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01134,697,493 - 34,697,703NCBIRnor6.0
Rnor_6.02048,856,044 - 48,856,254NCBIRnor6.0
Rnor_5.02050,498,479 - 50,498,689UniSTSRnor5.0
Rnor_5.01138,288,899 - 38,289,109UniSTSRnor5.0
RGSC_v3.42047,793,487 - 47,793,697UniSTSRGSC3.4
Celera2052,635,559 - 52,635,769UniSTS
RH 3.4 Map20494.82UniSTS
Cytogenetic Map11q11UniSTS
Cytogenetic Map20q13UniSTS
BF403345  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01134,609,662 - 34,609,815NCBIRnor6.0
Rnor_5.01138,197,409 - 38,197,562UniSTSRnor5.0
RGSC_v3.41134,628,880 - 34,629,033UniSTSRGSC3.4
Celera1134,749,178 - 34,749,331UniSTS
RH 3.4 Map11255.01UniSTS
Cytogenetic Map11q11UniSTS
RH135393  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01134,624,722 - 34,624,924NCBIRnor6.0
Rnor_5.01138,212,469 - 38,212,671UniSTSRnor5.0
RGSC_v3.41134,643,940 - 34,644,142UniSTSRGSC3.4
Celera1134,734,041 - 34,734,243UniSTS
RH 3.4 Map11255.01UniSTS
Cytogenetic Map11q11UniSTS
RH139415  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01134,739,625 - 34,739,836NCBIRnor6.0
Rnor_5.01138,331,274 - 38,331,485UniSTSRnor5.0
Celera1134,661,601 - 34,661,812UniSTS
Cytogenetic Map11q11UniSTS
AI102584  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01134,693,577 - 34,693,785NCBIRnor6.0
Rnor_5.01138,284,983 - 38,285,191UniSTSRnor5.0
Celera1134,688,581 - 34,688,789UniSTS
RH 3.4 Map11255.01UniSTS
Cytogenetic Map11q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11172720192Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)1132503169342559Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11935127454351274Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111136730644444347Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111632197346583360Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)111947517979734728Rat
1598811Bp291Blood pressure QTL 2911.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)112194422966944229Rat
1598841Memor7Memory QTL 7exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)112194422966944229Rat
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)112204314944444112Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112540112970401129Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112572003870720038Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112572003870720038Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112572003870720038Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112572003870720038Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112831466586994795Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)113043533963186373Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)113043533986714631Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113215552082443118Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:31
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000065600
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 3 43 44 28 19 28 8 10 74 35 38 11 8
Low 13 13 13 1 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088460 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088461 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088466 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088467 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088468 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088469 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088470 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088471 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088474 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088475 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212785 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213729 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213795 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213802 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213885 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214421 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000065600   ⟹   ENSRNOP00000059742
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1134,598,492 - 34,738,791 (+)Ensembl
RefSeq Acc Id: NM_001108315   ⟹   NP_001101785
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,142 - 33,788,974 (+)NCBI
Rnor_6.01134,598,324 - 34,739,984 (+)NCBI
Rnor_5.01138,186,073 - 38,331,635 (+)NCBI
RGSC_v3.41134,617,072 - 34,659,043 (+)RGD
Celera1134,661,453 - 34,760,646 (-)RGD
Sequence:
RefSeq Acc Id: XM_008768582   ⟹   XP_008766804
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01134,598,329 - 34,739,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039088460   ⟹   XP_038944388
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,155 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088461   ⟹   XP_038944389
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,155 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088462   ⟹   XP_038944390
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,691,562 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088463   ⟹   XP_038944391
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,155 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088464   ⟹   XP_038944392
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,697,556 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088465   ⟹   XP_038944393
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,697,556 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088466   ⟹   XP_038944394
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,124 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088467   ⟹   XP_038944395
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,155 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088468   ⟹   XP_038944396
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,155 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088469   ⟹   XP_038944397
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,707,444 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088470   ⟹   XP_038944398
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,715,275 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088471   ⟹   XP_038944399
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,713,561 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088472   ⟹   XP_038944400
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,189 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088473   ⟹   XP_038944401
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,119 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088474   ⟹   XP_038944402
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,201 - 33,788,976 (+)NCBI
RefSeq Acc Id: XM_039088475   ⟹   XP_038944403
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,689,119 - 33,788,976 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001101785 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944388 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944389 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944390 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944391 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944392 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944393 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944394 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944395 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944396 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944397 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944398 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944399 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944400 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944401 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944402 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944403 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein D3ZSP7 (Get FASTA)   NCBI Sequence Viewer  
  EDL76707 (Get FASTA)   NCBI Sequence Viewer  
  EDL76708 (Get FASTA)   NCBI Sequence Viewer  
  EDL76709 (Get FASTA)   NCBI Sequence Viewer  
  EDL76710 (Get FASTA)   NCBI Sequence Viewer  
  EDL76711 (Get FASTA)   NCBI Sequence Viewer  
  EDL76712 (Get FASTA)   NCBI Sequence Viewer  
  EDL76713 (Get FASTA)   NCBI Sequence Viewer  
  EDL76714 (Get FASTA)   NCBI Sequence Viewer  
  EDL76715 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101785   ⟸   NM_001108315
- Sequence:
RefSeq Acc Id: XP_008766804   ⟸   XM_008768582
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000059742   ⟸   ENSRNOT00000065600
RefSeq Acc Id: XP_038944401   ⟸   XM_039088473
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038944403   ⟸   XM_039088475
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038944394   ⟸   XM_039088466
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038944388   ⟸   XM_039088460
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038944395   ⟸   XM_039088467
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038944396   ⟸   XM_039088468
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038944389   ⟸   XM_039088461
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944391   ⟸   XM_039088463
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038944400   ⟸   XM_039088472
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038944402   ⟸   XM_039088474
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038944390   ⟸   XM_039088462
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038944392   ⟸   XM_039088464
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038944393   ⟸   XM_039088465
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038944397   ⟸   XM_039088469
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038944399   ⟸   XM_039088471
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038944398   ⟸   XM_039088470
- Peptide Label: isoform X9

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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)
ACI/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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
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:1308654 AgrOrtholog
Ensembl Genes ENSRNOG00000001682 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000059742 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000065600 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot
  3.30.40.10 UniProtKB/Swiss-Prot
InterPro TPR-contain_dom UniProtKB/Swiss-Prot
  TPR-like_helical_dom_sf UniProtKB/Swiss-Prot
  TPR_repeat UniProtKB/Swiss-Prot
  TTC3/DZIP3_dom UniProtKB/Swiss-Prot
  Znf_RING UniProtKB/Swiss-Prot
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot
NCBI Gene 360702 ENTREZGENE
Pfam DUF5861 UniProtKB/Swiss-Prot
  zf-RING_2 UniProtKB/Swiss-Prot
PhenoGen Ttc3 PhenoGen
PROSITE TPR UniProtKB/Swiss-Prot
  TPR_REGION UniProtKB/Swiss-Prot
  ZF_RING_2 UniProtKB/Swiss-Prot
SMART RING UniProtKB/Swiss-Prot
  TPR UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48452 UniProtKB/Swiss-Prot
UniProt D3ZSP7 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Ttc3  tetratricopeptide repeat domain 3   Ttc3_predicted  tetratricopeptide repeat domain 3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ttc3_predicted  tetratricopeptide repeat domain 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED