Ttll1 (tubulin tyrosine ligase like 1) - Rat Genome Database

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Gene: Ttll1 (tubulin tyrosine ligase like 1) Rattus norvegicus
Analyze
Symbol: Ttll1
Name: tubulin tyrosine ligase like 1
RGD ID: 1309124
Description: Predicted to enable tubulin binding activity and tubulin-glutamic acid ligase activity. Predicted to be involved in microtubule cytoskeleton organization and protein polyglutamylation. Predicted to act upstream of or within several processes, including cerebellar Purkinje cell differentiation; mucociliary clearance; and regulation of blastocyst development. Predicted to be located in ciliary basal body. Predicted to be active in cilium. Orthologous to human TTLL1 (tubulin tyrosine ligase like 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; all-trans-retinoic acid.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC362969; PGs3; probable tubulin polyglutamylase TTLL1; tubulin polyglutamylase complex subunit 3; tubulin tyrosine ligase-like 1; tubulin tyrosine ligase-like family, member 1; tubulin--tyrosine ligase-like protein 1
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
mRatBN7.27114,619,509 - 114,648,850 (-)NCBI
Rnor_6.0 Ensembl7124,338,395 - 124,367,630 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07124,338,396 - 124,367,719 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07124,327,308 - 124,356,639 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47121,420,125 - 121,441,444 (+)NCBIRGSC3.4rn4RGSC3.4
Celera7110,932,407 - 110,961,694 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:15890843   PMID:17499049   PMID:19182904   PMID:20442420   PMID:20498047   PMID:29440671   PMID:29593216   PMID:30420556  


Genomics

Comparative Map Data
Ttll1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27114,619,509 - 114,648,850 (-)NCBI
Rnor_6.0 Ensembl7124,338,395 - 124,367,630 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07124,338,396 - 124,367,719 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07124,327,308 - 124,356,639 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47121,420,125 - 121,441,444 (+)NCBIRGSC3.4rn4RGSC3.4
Celera7110,932,407 - 110,961,694 (-)NCBICelera
Cytogenetic Map7q34NCBI
TTLL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2243,039,516 - 43,089,419 (-)EnsemblGRCh38hg38GRCh38
GRCh382243,039,516 - 43,089,418 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372243,435,522 - 43,485,397 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362241,765,589 - 41,815,373 (-)NCBINCBI36hg18NCBI36
Build 342241,760,142 - 41,809,927NCBI
Celera2227,346,102 - 27,395,837 (-)NCBI
Cytogenetic Map22q13.2NCBI
HuRef2226,394,153 - 26,443,736 (-)NCBIHuRef
CHM1_12243,395,326 - 43,445,000 (-)NCBICHM1_1
Ttll1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391583,367,258 - 83,402,675 (-)NCBIGRCm39mm39
GRCm39 Ensembl1583,367,970 - 83,395,094 (-)Ensembl
GRCm381583,483,057 - 83,518,474 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1583,483,769 - 83,510,893 (-)EnsemblGRCm38mm10GRCm38
MGSCv371583,314,199 - 83,341,337 (-)NCBIGRCm37mm9NCBIm37
MGSCv361583,311,538 - 83,338,643 (-)NCBImm8
Celera1585,617,197 - 85,644,203 (-)NCBICelera
Cytogenetic Map15E1NCBI
Ttll1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541328,234,486 - 28,250,688 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541328,234,964 - 28,250,899 (-)NCBIChiLan1.0ChiLan1.0
TTLL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12242,128,224 - 42,174,850 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2242,128,224 - 42,174,850 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02223,924,628 - 23,973,282 (-)NCBIMhudiblu_PPA_v0panPan3
TTLL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11022,456,150 - 22,492,375 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1022,456,146 - 22,488,505 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1022,392,648 - 22,439,139 (+)NCBI
ROS_Cfam_1.01023,200,588 - 23,247,276 (+)NCBI
UMICH_Zoey_3.11022,919,827 - 22,966,313 (+)NCBI
UNSW_CanFamBas_1.01023,239,254 - 23,285,573 (+)NCBI
UU_Cfam_GSD_1.01023,413,992 - 23,460,493 (+)NCBI
Ttll1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049456,091,553 - 6,110,264 (+)NCBI
SpeTri2.0NW_004936718869,901 - 884,708 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTLL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl55,793,780 - 5,827,639 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.155,793,760 - 5,827,622 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.253,216,125 - 3,250,371 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TTLL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11925,576,525 - 25,616,413 (-)NCBI
ChlSab1.1 Ensembl1925,576,379 - 25,616,328 (-)Ensembl
Vero_WHO_p1.0NW_02366604599,827,235 - 99,869,254 (+)NCBI
Ttll1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247525,883,039 - 5,901,333 (+)NCBI

Position Markers
AV014541  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27114,619,815 - 114,619,909 (+)MAPPER
Rnor_6.07124,338,703 - 124,338,796NCBIRnor6.0
Rnor_5.07124,327,615 - 124,327,708UniSTSRnor5.0
Celera7110,932,713 - 110,932,806UniSTS
Cytogenetic Map7q34UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)72920071124838025Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)748118835128611831Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)750704769128085642Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)777428105127748511Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)781645773140745067Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)788365265133365265Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)788365265134673427Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)791018361136018361Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)793726906138726906Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)793726906138726906Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)796630946141630946Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)7100160423140335001Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)7103815550126525386Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)7103867802126080176Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7112429186126525386Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7121986439143965591Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7122421276143965415Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:132
Count of miRNA genes:104
Interacting mature miRNAs:114
Transcripts:ENSRNOT00000055978
Prediction methods:Microtar, 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 12 2 2 2 73 18 33 1
Low 3 31 55 39 19 39 8 11 1 17 8 10 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001012200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001393857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242102 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242104 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594990 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005486678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005486679 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC087669 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000055978   ⟹   ENSRNOP00000052832
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7124,338,395 - 124,367,630 (-)Ensembl
RefSeq Acc Id: NM_001012200   ⟹   NP_001012200
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,510 - 114,648,761 (-)NCBI
Rnor_6.07124,338,397 - 124,367,630 (-)NCBI
Rnor_5.07124,327,308 - 124,356,639 (-)NCBI
RGSC_v3.47121,420,125 - 121,441,444 (+)RGD
Celera7110,932,407 - 110,961,694 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242103   ⟹   XP_006242165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,509 - 114,648,809 (-)NCBI
Rnor_6.07124,338,396 - 124,367,687 (-)NCBI
Rnor_5.07124,327,308 - 124,356,639 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242104   ⟹   XP_006242166
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,509 - 114,648,850 (-)NCBI
Rnor_6.07124,338,396 - 124,367,719 (-)NCBI
Rnor_5.07124,327,308 - 124,356,639 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079600   ⟹   XP_038935528
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,509 - 114,648,812 (-)NCBI
RefSeq Acc Id: XM_039079601   ⟹   XP_038935529
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,509 - 114,648,850 (-)NCBI
RefSeq Acc Id: XM_039079602   ⟹   XP_038935530
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,509 - 114,648,814 (-)NCBI
RefSeq Acc Id: XM_039079604   ⟹   XP_038935532
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,509 - 114,648,814 (-)NCBI
RefSeq Acc Id: XR_005486678
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,744 - 114,648,810 (-)NCBI
RefSeq Acc Id: XR_005486679
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,619,744 - 114,648,813 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001012200   ⟸   NM_001012200
- UniProtKB: Q5PPI9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242166   ⟸   XM_006242104
- Peptide Label: isoform X2
- UniProtKB: Q5PPI9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242165   ⟸   XM_006242103
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000052832   ⟸   ENSRNOT00000055978
RefSeq Acc Id: XP_038935529   ⟸   XM_039079601
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038935530   ⟸   XM_039079602
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038935532   ⟸   XM_039079604
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038935528   ⟸   XM_039079600
- Peptide Label: isoform X3
Protein Domains
TTL

Transcriptome

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

Promoters
RGD ID:13695548
Promoter ID:EPDNEW_R6073
Type:initiation region
Name:Ttll1_1
Description:tubulin tyrosine ligase like 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_6.07124,367,645 - 124,367,705EPDNEW

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)
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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)
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
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:1309124 AgrOrtholog
Ensembl Genes ENSRNOG00000010141 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000052832 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000055978 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.1490.20 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7316813 IMAGE-MGC_LOAD
InterPro ATP_grasp_subdomain_1 UniProtKB/Swiss-Prot
  TTL/TTLL_fam UniProtKB/Swiss-Prot
  TTLL1 UniProtKB/Swiss-Prot
KEGG Report rno:362969 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105511 IMAGE-MGC_LOAD
NCBI Gene 362969 ENTREZGENE
PANTHER PTHR12241:SF31 UniProtKB/Swiss-Prot
Pfam TTL UniProtKB/Swiss-Prot
PhenoGen Ttll1 PhenoGen
PROSITE TTL UniProtKB/Swiss-Prot
UniProt Q5PPI9 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Ttll1  tubulin tyrosine ligase like 1  Ttll1  tubulin tyrosine ligase-like family, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-12-15 Ttll1  tubulin tyrosine ligase-like family, member 1  Ttll1  tubulin tyrosine ligase-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Ttll1  tubulin tyrosine ligase-like 1  Ttll1_predicted  tubulin tyrosine ligase-like 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Ttll1_predicted  tubulin tyrosine ligase-like 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED