Ttbk1 (tau tubulin kinase 1) - Rat Genome Database

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Gene: Ttbk1 (tau tubulin kinase 1) Rattus norvegicus
Analyze
Symbol: Ttbk1
Name: tau tubulin kinase 1
RGD ID: 1559518
Description: Predicted to enable protein kinase activity and tau protein binding activity. Predicted to be involved in several processes, including positive regulation of microglial cell activation; regulation of gene expression; and substantia nigra development. Predicted to be located in several cellular components, including neuronal cell body; nucleoplasm; and perinuclear region of cytoplasm. Predicted to be active in cytoplasm and nucleus. Orthologous to human TTBK1 (tau tubulin kinase 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; amphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC316229; RGD1559518; similar to RP3-330M21.4; tau-tubulin kinase 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8921,990,973 - 22,035,961 (+)NCBIGRCr8
mRatBN7.2914,493,166 - 14,538,372 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl914,493,389 - 14,535,774 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx923,080,333 - 23,117,363 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0928,143,428 - 28,180,645 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0926,443,713 - 26,480,742 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0916,862,305 - 16,899,399 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl916,862,248 - 16,902,199 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0915,761,885 - 15,798,787 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.499,881,464 - 9,920,531 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera912,244,422 - 12,281,152 (+)NCBICelera
Cytogenetic Map9q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. TTBK2 with EB1/3 regulates microtubule dynamics in migrating cells through KIF2A phosphorylation. Watanabe T, etal., J Cell Biol. 2015 Aug 31;210(5):737-51. doi: 10.1083/jcb.201412075.
Additional References at PubMed
PMID:16923168   PMID:19118186   PMID:22926577  


Genomics

Comparative Map Data
Ttbk1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8921,990,973 - 22,035,961 (+)NCBIGRCr8
mRatBN7.2914,493,166 - 14,538,372 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl914,493,389 - 14,535,774 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx923,080,333 - 23,117,363 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0928,143,428 - 28,180,645 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0926,443,713 - 26,480,742 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0916,862,305 - 16,899,399 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl916,862,248 - 16,902,199 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0915,761,885 - 15,798,787 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.499,881,464 - 9,920,531 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera912,244,422 - 12,281,152 (+)NCBICelera
Cytogenetic Map9q12NCBI
TTBK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38643,243,481 - 43,288,258 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl643,243,481 - 43,288,258 (+)EnsemblGRCh38hg38GRCh38
GRCh37643,211,219 - 43,255,996 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36643,319,200 - 43,363,975 (+)NCBINCBI36Build 36hg18NCBI36
Build 34643,319,199 - 43,363,975NCBI
Celera644,763,431 - 44,808,208 (+)NCBICelera
Cytogenetic Map6p21.1NCBI
HuRef642,931,340 - 42,973,614 (+)NCBIHuRef
CHM1_1643,214,168 - 43,258,942 (+)NCBICHM1_1
T2T-CHM13v2.0643,072,270 - 43,117,062 (+)NCBIT2T-CHM13v2.0
Ttbk1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391746,751,577 - 46,798,596 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1746,753,374 - 46,798,601 (-)EnsemblGRCm39 Ensembl
GRCm381746,442,448 - 46,487,675 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1746,442,448 - 46,487,675 (-)EnsemblGRCm38mm10GRCm38
MGSCv371746,579,397 - 46,624,624 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361745,905,637 - 45,907,556 (-)NCBIMGSCv36mm8
Celera1749,878,167 - 49,923,194 (-)NCBICelera
Cytogenetic Map17CNCBI
cM Map1722.9NCBI
Ttbk1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554379,165,414 - 9,197,612 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554379,161,880 - 9,195,098 (+)NCBIChiLan1.0ChiLan1.0
TTBK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2557,743,402 - 57,791,429 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1653,613,236 - 53,661,268 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0642,835,285 - 42,880,100 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1644,131,311 - 44,172,795 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl644,131,360 - 44,169,912 (+)Ensemblpanpan1.1panPan2
TTBK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11211,738,466 - 11,774,663 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1211,738,232 - 11,757,814 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1211,762,153 - 11,804,423 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01212,219,189 - 12,261,503 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1212,219,010 - 12,258,505 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11211,744,980 - 11,787,237 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01211,829,216 - 11,868,477 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01211,924,194 - 11,963,564 (+)NCBIUU_Cfam_GSD_1.0
Ttbk1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494647,234,441 - 47,275,246 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647616,689,305 - 16,725,708 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647616,686,513 - 16,725,750 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTBK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl738,276,126 - 38,319,485 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1738,276,466 - 38,319,486 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2743,776,644 - 43,819,849 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TTBK1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11728,865,747 - 28,911,978 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1728,868,627 - 28,908,097 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604443,303,527 - 43,349,009 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ttbk1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475416,290,613 - 16,320,070 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475416,288,172 - 16,322,794 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ttbk1
191 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:52
Count of miRNA genes:44
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000024824
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat

Markers in Region
RH140426  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2914,525,137 - 14,525,355 (+)MAPPERmRatBN7.2
Rnor_6.0916,890,578 - 16,890,794NCBIRnor6.0
Rnor_5.0915,789,966 - 15,790,182UniSTSRnor5.0
RGSC_v3.499,911,711 - 9,911,928UniSTSRGSC3.4
Celera912,272,331 - 12,272,548UniSTS
RH 3.4 Map960.4UniSTS
Cytogenetic Map9q12UniSTS


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 58 7
Low 2 2 2 2 16 21
Below cutoff 3 8 36 22 15 22 6 7 25 13 8 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024824   ⟹   ENSRNOP00000024824
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl914,496,400 - 14,533,959 (+)Ensembl
Rnor_6.0 Ensembl916,862,305 - 16,899,399 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000080104   ⟹   ENSRNOP00000068742
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl914,493,389 - 14,535,774 (+)Ensembl
Rnor_6.0 Ensembl916,862,248 - 16,902,199 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000116823   ⟹   ENSRNOP00000080469
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl914,493,389 - 14,535,774 (+)Ensembl
RefSeq Acc Id: NM_001271230   ⟹   NP_001258159
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,990,973 - 22,035,961 (+)NCBI
mRatBN7.2914,493,376 - 14,538,372 (+)NCBI
Rnor_6.0916,862,305 - 16,899,399 (+)NCBI
Rnor_5.0915,761,885 - 15,798,787 (+)NCBI
Celera912,244,422 - 12,281,152 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039083517   ⟹   XP_038939445
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,991,108 - 22,034,310 (+)NCBI
mRatBN7.2914,493,166 - 14,538,372 (+)NCBI
RefSeq Acc Id: XM_039083518   ⟹   XP_038939446
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,991,107 - 22,034,310 (+)NCBI
mRatBN7.2914,493,166 - 14,538,372 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001258159 (Get FASTA)   NCBI Sequence Viewer  
  XP_038939445 (Get FASTA)   NCBI Sequence Viewer  
  XP_038939446 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM18824 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024824.8
  ENSRNOP00000068742
  ENSRNOP00000068742.2
  ENSRNOP00000080469
  ENSRNOP00000080469.1
Reference Protein Sequences
RefSeq Acc Id: NP_001258159   ⟸   NM_001271230
- UniProtKB: A0A0G2JTK1 (UniProtKB/TrEMBL),   D3ZAU7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068742   ⟸   ENSRNOT00000080104
RefSeq Acc Id: ENSRNOP00000024824   ⟸   ENSRNOT00000024824
RefSeq Acc Id: XP_038939445   ⟸   XM_039083517
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZQS3 (UniProtKB/TrEMBL),   D3ZAU7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038939446   ⟸   XM_039083518
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZQS3 (UniProtKB/TrEMBL),   D3ZAU7 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000080469   ⟸   ENSRNOT00000116823
Protein Domains
Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JTK1-F1-model_v2 AlphaFold A0A0G2JTK1 1-1366 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1559518 AgrOrtholog
BioCyc Gene G2FUF-28227 BioCyc
Ensembl Genes ENSRNOG00000018416 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024824.8 UniProtKB/TrEMBL
  ENSRNOT00000080104 ENTREZGENE
  ENSRNOT00000080104.2 UniProtKB/TrEMBL
  ENSRNOT00000116823.1 UniProtKB/TrEMBL
Gene3D-CATH Transferase(Phosphotransferase) domain 1 UniProtKB/TrEMBL
InterPro Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  TTBK1_STKc UniProtKB/TrEMBL
KEGG Report rno:316229 UniProtKB/TrEMBL
NCBI Gene 316229 ENTREZGENE
PANTHER CASEIN KINASE-RELATED UniProtKB/TrEMBL
  TAU-TUBULIN KINASE 1 UniProtKB/TrEMBL
Pfam Pkinase UniProtKB/TrEMBL
PhenoGen Ttbk1 PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018416 RatGTEx
SMART S_TKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
UniProt A0A0G2JTK1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZQS3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZAU7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-04-23 Ttbk1  tau tubulin kinase 1  RGD1559518  similar to RP3-330M21.4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1559518  similar to RP3-330M21.4   RGD1559518_predicted  similar to RP3-330M21.4 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1559518_predicted  similar to RP3-330M21.4 (predicted)  LOC316229  similar to RP3-330M21.4  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC316229  similar to RP3-330M21.4      Symbol and Name status set to provisional 70820 PROVISIONAL