Ttc9b (tetratricopeptide repeat domain 9B) - Rat Genome Database

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Gene: Ttc9b (tetratricopeptide repeat domain 9B) Rattus norvegicus
Analyze
Symbol: Ttc9b
Name: tetratricopeptide repeat domain 9B
RGD ID: 1306256
Description: Orthologous to human TTC9B (tetratricopeptide repeat domain 9B); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC361528; RGD1306256; similar to hypothetical protein FLJ30373; tetratricopeptide repeat protein 9B
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,081,026 - 92,083,208 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl192,080,806 - 92,083,203 (+)EnsemblGRCr8
mRatBN7.2182,953,434 - 82,955,659 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl182,953,434 - 82,955,616 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx188,356,016 - 88,358,198 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0196,836,604 - 96,838,792 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0190,111,879 - 90,114,061 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0184,470,829 - 84,473,011 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl184,470,829 - 84,473,011 (+)Ensemblrn6Rnor6.0
Rnor_5.0185,683,938 - 85,686,120 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4182,748,075 - 82,750,257 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera177,359,569 - 77,361,751 (+)NCBICelera
RGSC_v3.1182,826,189 - 82,828,330 (+)NCBI
Cytogenetic Map1q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Ttc9b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,081,026 - 92,083,208 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl192,080,806 - 92,083,203 (+)EnsemblGRCr8
mRatBN7.2182,953,434 - 82,955,659 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl182,953,434 - 82,955,616 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx188,356,016 - 88,358,198 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0196,836,604 - 96,838,792 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0190,111,879 - 90,114,061 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0184,470,829 - 84,473,011 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl184,470,829 - 84,473,011 (+)Ensemblrn6Rnor6.0
Rnor_5.0185,683,938 - 85,686,120 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4182,748,075 - 82,750,257 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera177,359,569 - 77,361,751 (+)NCBICelera
RGSC_v3.1182,826,189 - 82,828,330 (+)NCBI
Cytogenetic Map1q21NCBI
TTC9B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381940,216,058 - 40,218,384 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1940,216,058 - 40,218,388 (-)Ensemblhg38GRCh38
GRCh371940,721,965 - 40,724,291 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361945,413,805 - 45,416,138 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1937,521,518 - 37,523,859 (-)NCBICelera
Cytogenetic Map19q13.2NCBI
HuRef1937,156,908 - 37,159,249 (-)NCBIHuRef
CHM1_11940,721,642 - 40,723,983 (-)NCBICHM1_1
T2T-CHM13v2.01943,036,569 - 43,038,895 (-)NCBIT2T-CHM13v2.0
Ttc9b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39727,353,349 - 27,355,632 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl727,353,340 - 27,356,771 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38727,653,924 - 27,656,207 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl727,653,915 - 27,657,346 (+)Ensemblmm10GRCm38
MGSCv37728,438,943 - 28,441,226 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36727,362,675 - 27,364,970 (+)NCBIMGSCv36mm8
Celera722,236,080 - 22,238,363 (+)NCBICelera
Cytogenetic Map7A3NCBI
cM Map715.95NCBI
Ttc9b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555781,015,124 - 1,018,135 (+)Ensembl
ChiLan1.0NW_0049555781,014,670 - 1,018,120 (+)NCBIChiLan1.0ChiLan1.0
TTC9B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22046,475,354 - 46,477,807 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11948,345,991 - 48,348,466 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01937,260,791 - 37,263,267 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11945,775,896 - 45,778,427 (-)NCBIPanPan1.1PanPan1.1panPan2
TTC9B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11113,419,556 - 113,422,057 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1113,419,715 - 113,422,045 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1112,821,320 - 112,823,816 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01114,018,214 - 114,020,735 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1114,018,371 - 114,020,723 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11113,577,183 - 113,579,671 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01113,209,692 - 113,212,191 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01114,203,583 - 114,206,063 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ttc9b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934914,210,325 - 14,212,666 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366612,637,189 - 2,640,725 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366612,638,394 - 2,640,785 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100522141
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl648,545,334 - 48,547,514 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1648,509,998 - 48,554,374 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2644,200,834 - 44,329,821 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TTC9B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1634,674,727 - 34,677,439 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl634,674,716 - 34,677,153 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607312,767,764 - 12,770,379 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ttc9b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624925250,240 - 252,723 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624925250,231 - 252,716 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Ttc9b
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12168,286,987 - 168,289,358 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ttc9b
13 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:75
Count of miRNA genes:61
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000025472
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)151940904101229020Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)187889942132889942Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)186622262131622262Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
1331800Scl25Serum cholesterol level QTL 253.013blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)187785026142582336Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183019780128019780Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)186993904131993904Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)18126986099645535Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)187558587132558587Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)184107164115183752Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)191302413136302413Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16540563796805205Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
9 7 18 138 46 45 17 36 17 6 119 76 120 12 55 28 16 16

Sequence


Ensembl Acc Id: ENSRNOT00000025472   ⟹   ENSRNOP00000025472
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl192,080,806 - 92,083,203 (+)Ensembl
mRatBN7.2 Ensembl182,953,434 - 82,955,616 (+)Ensembl
Rnor_6.0 Ensembl184,470,829 - 84,473,011 (+)Ensembl
RefSeq Acc Id: NM_001108478   ⟹   NP_001101948
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8192,081,026 - 92,083,208 (+)NCBI
mRatBN7.2182,953,434 - 82,955,616 (+)NCBI
Rnor_6.0184,470,829 - 84,473,011 (+)NCBI
Rnor_5.0185,683,938 - 85,686,120 (+)NCBI
RGSC_v3.4182,748,075 - 82,750,257 (+)RGD
Celera177,359,569 - 77,361,751 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001101948 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM07939 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000025472
  ENSRNOP00000025472.4
RefSeq Acc Id: NP_001101948   ⟸   NM_001108478
- UniProtKB: D3ZTK0 (UniProtKB/TrEMBL),   A6J9E5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000025472   ⟸   ENSRNOT00000025472

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZTK0-F1-model_v2 AlphaFold D3ZTK0 1-239 view protein structure

Transcriptome

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

Promoters
RGD ID:13689858
Promoter ID:EPDNEW_R383
Type:multiple initiation site
Name:Ttc9b_1
Description:tetratricopeptide repeat domain 9B
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_6.0184,470,854 - 84,470,914EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306256 AgrOrtholog
BioCyc Gene G2FUF-60297 BioCyc
Ensembl Genes ENSRNOG00000018850 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025472 ENTREZGENE
  ENSRNOT00000025472.7 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
InterPro AIP/AIPL1/TTC9 UniProtKB/TrEMBL
  TPR-like_helical UniProtKB/TrEMBL
  TPR_2 UniProtKB/TrEMBL
  TPR_repeat UniProtKB/TrEMBL
KEGG Report rno:361528 UniProtKB/TrEMBL
NCBI Gene 361528 ENTREZGENE
PANTHER ARYL HYDROCARBON RECEPTOR INTERACTING PROTEIN RELATED UniProtKB/TrEMBL
  TETRATRICOPEPTIDE REPEAT PROTEIN 9B UniProtKB/TrEMBL
Pfam TPR_2 UniProtKB/TrEMBL
PhenoGen Ttc9b PhenoGen
PROSITE TPR UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018850 RatGTEx
SMART TPR UniProtKB/TrEMBL
Superfamily-SCOP SSF48452 UniProtKB/TrEMBL
UniProt A6J9E5 ENTREZGENE, UniProtKB/TrEMBL
  D3ZTK0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Ttc9b  tetratricopeptide repeat domain 9B  RGD1306256_predicted  similar to hypothetical protein FLJ30373 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1306256_predicted  similar to hypothetical protein FLJ30373 (predicted)  LOC361528_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361528_predicted  similar to hypothetical protein FLJ30373 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL