Ttc5 (tetratricopeptide repeat domain 5) - Rat Genome Database

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Gene: Ttc5 (tetratricopeptide repeat domain 5) Rattus norvegicus
Analyze
Symbol: Ttc5
Name: tetratricopeptide repeat domain 5
RGD ID: 1311284
Description: Predicted to enable DNA binding activity; chromatin binding activity; and ribosome binding activity. Predicted to be involved in DNA damage response; cellular response to starvation; and positive regulation of mRNA catabolic process. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be located in several cellular components, including cytoplasmic vesicle; cytosol; and mitochondrion. Orthologous to human TTC5 (tetratricopeptide repeat domain 5); PARTICIPATES IN p53 signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; gentamycin.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC305837; MGC108914; strap; stress-responsive activator of p300; tetratricopeptide repeat protein 5; TPR repeat protein 5
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
GRCr81526,466,613 - 26,484,269 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1526,466,624 - 26,484,212 (-)EnsemblGRCr8
mRatBN7.21523,993,046 - 24,010,710 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1523,993,048 - 24,010,668 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1526,764,272 - 26,781,856 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01527,722,902 - 27,740,465 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01525,972,796 - 25,990,392 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01527,698,375 - 27,715,970 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1527,698,362 - 27,716,008 (-)Ensemblrn6Rnor6.0
Rnor_5.01531,530,800 - 31,548,395 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41526,749,259 - 26,766,848 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1524,312,000 - 24,330,147 (-)NCBICelera
RGSC_v3.11526,764,960 - 26,782,548 (-)NCBI
Cytogenetic Map15p14NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA,ISO)
cytoplasmic vesicle  (IEA,ISO,ISS)
cytosol  (IEA,ISO,ISS)
mitochondrial matrix  (IEA)
mitochondrion  (IEA,ISO,ISS)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO,ISS)

Molecular Function
chromatin binding  (IEA,ISO)
DNA binding  (IEA,ISO)
protein binding  (ISO)
ribosome binding  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15489334   PMID:22362889  


Genomics

Comparative Map Data
Ttc5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81526,466,613 - 26,484,269 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1526,466,624 - 26,484,212 (-)EnsemblGRCr8
mRatBN7.21523,993,046 - 24,010,710 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1523,993,048 - 24,010,668 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1526,764,272 - 26,781,856 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01527,722,902 - 27,740,465 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01525,972,796 - 25,990,392 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01527,698,375 - 27,715,970 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1527,698,362 - 27,716,008 (-)Ensemblrn6Rnor6.0
Rnor_5.01531,530,800 - 31,548,395 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41526,749,259 - 26,766,848 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1524,312,000 - 24,330,147 (-)NCBICelera
RGSC_v3.11526,764,960 - 26,782,548 (-)NCBI
Cytogenetic Map15p14NCBI
TTC5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381420,286,227 - 20,305,951 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1420,256,558 - 20,305,963 (-)Ensemblhg38GRCh38
GRCh371420,754,386 - 20,774,110 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361419,827,144 - 19,843,976 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341419,827,143 - 19,843,976NCBI
Celera14618,437 - 635,301 (-)NCBICelera
Cytogenetic Map14q11.2NCBI
HuRef14879,432 - 896,309 (-)NCBIHuRef
CHM1_11420,758,235 - 20,775,107 (-)NCBICHM1_1
T2T-CHM13v2.01414,483,002 - 14,502,708 (-)NCBIT2T-CHM13v2.0
Ttc5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391451,002,866 - 51,022,977 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1451,002,872 - 51,022,976 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381450,765,409 - 50,785,520 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1450,765,415 - 50,785,519 (-)Ensemblmm10GRCm38
MGSCv371451,385,090 - 51,405,193 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361449,697,406 - 49,707,446 (-)NCBIMGSCv36mm8
Celera1447,053,176 - 47,073,234 (-)NCBICelera
Cytogenetic Map14C1NCBI
cM Map1426.24NCBI
Ttc5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555501,074,170 - 1,105,357 (-)Ensembl
ChiLan1.0NW_0049555501,073,697 - 1,105,055 (-)NCBIChiLan1.0ChiLan1.0
TTC5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21521,795,330 - 21,815,184 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11421,011,312 - 21,031,670 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0141,163,280 - 1,180,212 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11419,214,337 - 19,233,797 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1419,216,993 - 19,233,797 (-)EnsemblpanPan2panpan1.1
TTC5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11517,653,008 - 17,670,231 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1517,638,462 - 17,670,575 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1518,137,305 - 18,155,363 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01517,910,664 - 17,929,053 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1517,910,691 - 17,929,008 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11517,594,498 - 17,612,265 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01517,648,692 - 17,666,694 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01517,777,371 - 17,795,817 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ttc5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864077,515,241 - 77,539,652 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936877501,743 - 520,316 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936877504,406 - 520,295 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTC5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl778,578,294 - 78,600,592 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1778,578,247 - 78,600,794 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2783,606,604 - 83,626,652 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TTC5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12920,809,004 - 20,825,918 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2920,808,945 - 20,826,111 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605925,595,832 - 25,612,685 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ttc5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248254,863,028 - 4,900,363 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248254,863,610 - 4,923,164 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Ttc5
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11272,524,416 - 72,542,439 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ttc5
945 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:294
Count of miRNA genes:172
Interacting mature miRNAs:211
Transcripts:ENSRNOT00000011741
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
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15139411584Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152272835342072050Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15132342855Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151691152132439851Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat

Markers in Region
RH127591  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21523,993,294 - 23,993,478 (+)MAPPERmRatBN7.2
Rnor_6.01527,698,615 - 27,698,798NCBIRnor6.0
Rnor_5.01531,531,040 - 31,531,223UniSTSRnor5.0
RGSC_v3.41526,749,499 - 26,749,682UniSTSRGSC3.4
Celera1524,312,240 - 24,312,423UniSTS
Cytogenetic Map15p14UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 162 91 90 59 92 59 6 356 192 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000011741   ⟹   ENSRNOP00000011741
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1526,466,624 - 26,484,212 (-)Ensembl
mRatBN7.2 Ensembl1523,993,048 - 24,010,668 (-)Ensembl
Rnor_6.0 Ensembl1527,698,362 - 27,716,008 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000118299   ⟹   ENSRNOP00000090197
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1526,466,624 - 26,481,198 (-)Ensembl
mRatBN7.2 Ensembl1523,993,048 - 24,007,641 (-)Ensembl
RefSeq Acc Id: NM_001013131   ⟹   NP_001013149
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81526,466,617 - 26,484,212 (-)NCBI
mRatBN7.21523,993,055 - 24,010,655 (-)NCBI
Rnor_6.01527,698,375 - 27,715,970 (-)NCBI
Rnor_5.01531,530,800 - 31,548,395 (-)NCBI
RGSC_v3.41526,749,259 - 26,766,848 (-)RGD
Celera1524,312,000 - 24,330,147 (-)RGD
Sequence:
RefSeq Acc Id: XM_039093271   ⟹   XP_038949199
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81526,474,061 - 26,484,269 (-)NCBI
mRatBN7.21524,000,570 - 24,010,710 (-)NCBI
RefSeq Acc Id: XM_063274219   ⟹   XP_063130289
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81526,466,613 - 26,476,734 (-)NCBI
RefSeq Acc Id: XR_010057812
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81526,471,811 - 26,484,269 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001013149 (Get FASTA)   NCBI Sequence Viewer  
  XP_038949199 (Get FASTA)   NCBI Sequence Viewer  
  XP_063130289 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH91207 (Get FASTA)   NCBI Sequence Viewer  
  EDL88410 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000011741
  ENSRNOP00000011741.5
GenBank Protein Q5BK48 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001013149   ⟸   NM_001013131
- UniProtKB: Q5BK48 (UniProtKB/Swiss-Prot),   A6KEA5 (UniProtKB/TrEMBL),   A0A8I6GIP6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000011741   ⟸   ENSRNOT00000011741
RefSeq Acc Id: XP_038949199   ⟸   XM_039093271
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000090197   ⟸   ENSRNOT00000118299
RefSeq Acc Id: XP_063130289   ⟸   XM_063274219
- Peptide Label: isoform X1
Protein Domains
Tetratricopeptide repeat protein 5 OB fold

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5BK48-F1-model_v2 AlphaFold Q5BK48 1-440 view protein structure

Transcriptome

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

Promoters
RGD ID:13699619
Promoter ID:EPDNEW_R10143
Type:multiple initiation site
Name:Ttc5_1
Description:tetratricopeptide repeat domain 5
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_6.01527,715,973 - 27,716,033EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311284 AgrOrtholog
BioCyc Gene G2FUF-14065 BioCyc
Ensembl Genes ENSRNOG00000008850 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000011741 ENTREZGENE
  ENSRNOT00000011741.8 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot
  2.40.50.550 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7381272 IMAGE-MGC_LOAD
InterPro TPR-like_helical_dom_sf UniProtKB/Swiss-Prot
  TPR_repeat UniProtKB/Swiss-Prot
  TTC5_OB UniProtKB/Swiss-Prot
  TTC5_OB_sf UniProtKB/Swiss-Prot
  Ycf3/AcsC/BcsC/TPR_MFPF UniProtKB/Swiss-Prot
KEGG Report rno:305837 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108914 IMAGE-MGC_LOAD
NCBI Gene 305837 ENTREZGENE
PANTHER CELLULOSE SYNTHASE OPERON PROTEIN C UniProtKB/Swiss-Prot
  TPR REPEAT-CONTAINING PROTEIN MJ0798 UniProtKB/Swiss-Prot
Pfam TTC5_OB UniProtKB/Swiss-Prot
PhenoGen Ttc5 PhenoGen
PROSITE TPR UniProtKB/Swiss-Prot
  TPR_REGION UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000008850 RatGTEx
SMART TPR UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48452 UniProtKB/Swiss-Prot
UniProt A0A8I6GIP6 ENTREZGENE, UniProtKB/TrEMBL
  A6KEA5 ENTREZGENE, UniProtKB/TrEMBL
  Q5BK48 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Ttc5  tetratricopeptide repeat domain 5  Ttc5_predicted  tetratricopeptide repeat domain 5 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Ttc5_predicted  tetratricopeptide repeat domain 5 (predicted)      Symbol and Name status set to approved 70820 APPROVED