Ttc27 (tetratricopeptide repeat domain 27) - Rat Genome Database

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Gene: Ttc27 (tetratricopeptide repeat domain 27) Rattus norvegicus
Analyze
Symbol: Ttc27 (Ensembl: Ltbp1)
Name: tetratricopeptide repeat domain 27 (Ensembl:latent transforming growth factor beta binding protein 1)
RGD ID: 1305264
Description: Orthologous to human TTC27 (tetratricopeptide repeat domain 27); INTERACTS WITH (+)-schisandrin B; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC298782; RGD1305264; similar to hypothetical protein FLJ20272; tetratricopeptide repeat protein 27
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
GRCr8626,310,696 - 26,454,045 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl625,781,638 - 26,454,036 (-)EnsemblGRCr8
mRatBN7.2620,558,756 - 20,702,126 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl620,558,756 - 20,702,115 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx620,888,499 - 21,032,018 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0621,204,341 - 21,347,872 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0620,684,810 - 20,828,321 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0621,735,833 - 21,880,008 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl621,735,834 - 21,880,003 (-)Ensemblrn6Rnor6.0
Rnor_5.0631,624,976 - 31,768,795 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4620,488,489 - 20,633,486 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera620,119,555 - 20,262,030 (-)NCBICelera
RGSC_v3.1620,491,551 - 20,703,524 (-)NCBI
Cytogenetic Map6q13NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Comprehensive gene review and curation RGD comprehensive gene curation

Genomics

Comparative Map Data
Ttc27
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8626,310,696 - 26,454,045 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl625,781,638 - 26,454,036 (-)EnsemblGRCr8
mRatBN7.2620,558,756 - 20,702,126 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl620,558,756 - 20,702,115 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx620,888,499 - 21,032,018 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0621,204,341 - 21,347,872 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0620,684,810 - 20,828,321 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0621,735,833 - 21,880,008 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl621,735,834 - 21,880,003 (-)Ensemblrn6Rnor6.0
Rnor_5.0631,624,976 - 31,768,795 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4620,488,489 - 20,633,486 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera620,119,555 - 20,262,030 (-)NCBICelera
RGSC_v3.1620,491,551 - 20,703,524 (-)NCBI
Cytogenetic Map6q13NCBI
TTC27
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38232,628,050 - 32,821,051 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl232,628,032 - 32,821,051 (+)Ensemblhg38GRCh38
GRCh37232,853,117 - 33,046,118 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36232,706,633 - 32,899,622 (+)NCBIBuild 36Build 36hg18NCBI36
Celera232,697,911 - 32,890,934 (+)NCBICelera
Cytogenetic Map2p22.3NCBI
HuRef232,592,757 - 32,785,562 (+)NCBIHuRef
CHM1_1232,783,198 - 32,976,223 (+)NCBICHM1_1
T2T-CHM13v2.0232,676,701 - 32,869,813 (+)NCBIT2T-CHM13v2.0
Ttc27
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391775,024,730 - 75,170,565 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1775,024,727 - 75,170,565 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381774,717,735 - 74,863,570 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1774,717,732 - 74,863,570 (+)Ensemblmm10GRCm38
MGSCv371775,117,090 - 75,262,910 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361774,622,813 - 74,768,630 (+)NCBIMGSCv36mm8
Celera1779,028,336 - 79,168,725 (+)NCBICelera
Cytogenetic Map17E2NCBI
cM Map1745.64NCBI
Ttc27
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955441945,602 - 1,112,213 (+)Ensembl
ChiLan1.0NW_004955441945,619 - 1,111,973 (+)NCBIChiLan1.0ChiLan1.0
TTC27
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21293,673,634 - 93,868,493 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A93,677,606 - 93,872,441 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A32,642,274 - 32,837,116 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A33,353,005 - 33,548,832 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A33,353,005 - 33,548,832 (+)EnsemblpanPan2panpan1.1
TTC27
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11725,860,552 - 26,033,779 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1725,860,621 - 26,033,775 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1725,651,376 - 25,823,749 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01726,425,651 - 26,598,151 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1726,425,668 - 26,598,148 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11725,723,426 - 25,896,027 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01725,795,645 - 25,968,075 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01725,894,919 - 26,067,350 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ttc27
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629269,949,642 - 70,103,613 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936493735,267 - 889,951 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936493736,303 - 889,951 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTC27
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3106,821,423 - 106,999,102 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.13106,822,203 - 106,999,125 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23113,832,230 - 113,941,853 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TTC27
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11474,671,237 - 74,870,756 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1474,670,412 - 74,870,718 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604537,201,450 - 37,389,080 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ttc27
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473814,256,381 - 14,453,250 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473814,256,351 - 14,529,960 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Ttc27
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1718,383,333 - 18,527,675 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ttc27
713 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:12
Count of miRNA genes:12
Interacting mature miRNAs:12
Transcripts:ENSRNOT00000006505
Prediction methods:Miranda, Rnahybrid
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
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6197587946975879Rat
8693699Alc37Alcohol consumption QTL 372.60.224drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)61371716927053860Rat
8693645Alc31Alcohol consumption QTL 313.70.038drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)62328466429732046Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
8552910Pigfal5Plasma insulin-like growth factor 1 level QTL 54.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)62265388967653889Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)62228825727729050Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6323998948239989Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6197587946975879Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6197587946975879Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6144788383Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6197587946975879Rat
2292616Ept15Estrogen-induced pituitary tumorigenesis QTL 154.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6144788383Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6197587946975879Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6323998948239989Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6323998948239989Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6140163351Rat
70199Coreg1Compensatory renal growth QTL 111.8kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)61459947363457687Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)61608937261967788Rat
1358190Ept1Estrogen-induced pituitary tumorigenesis QTL 14.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6144788383Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6323998948239989Rat
1359023Bp272Blood pressure QTL 2722.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)62228825732981219Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)62228825767288257Rat
8693690Alc35Alcohol consumption QTL 352.20.606drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)61371716927053860Rat

Markers in Region
RH130265  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2620,558,791 - 20,558,981 (+)MAPPERmRatBN7.2
Rnor_6.0621,735,869 - 21,736,058NCBIRnor6.0
Rnor_5.0631,625,012 - 31,625,201UniSTSRnor5.0
RGSC_v3.4620,488,525 - 20,488,714UniSTSRGSC3.4
Celera620,119,591 - 20,119,780UniSTS
Cytogenetic Map6q12UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000006505   ⟹   ENSRNOP00000006505
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl620,558,756 - 20,702,115 (-)Ensembl
Rnor_6.0 Ensembl621,735,834 - 21,880,003 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000116986   ⟹   ENSRNOP00000094996
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl620,558,756 - 20,702,115 (-)Ensembl
RefSeq Acc Id: NM_001106706   ⟹   NP_001100176
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8626,310,696 - 26,454,036 (-)NCBI
mRatBN7.2620,558,756 - 20,702,115 (-)NCBI
Rnor_6.0621,735,833 - 21,879,992 (-)NCBI
Rnor_5.0631,624,976 - 31,768,795 (-)NCBI
RGSC_v3.4620,488,489 - 20,633,486 (-)RGD
Celera620,119,555 - 20,262,030 (-)RGD
Sequence:
RefSeq Acc Id: XM_006239754   ⟹   XP_006239816
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8626,310,696 - 26,454,045 (-)NCBI
mRatBN7.2620,558,756 - 20,702,126 (-)NCBI
Rnor_6.0621,735,833 - 21,880,008 (-)NCBI
Rnor_5.0631,624,976 - 31,768,795 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001100176 (Get FASTA)   NCBI Sequence Viewer  
  XP_006239816 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02831 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006505.6
  ENSRNOP00000094996
  ENSRNOP00000094996.1
  ENSRNOP00000104378.1
  ENSRNOP00000111213.1
RefSeq Acc Id: NP_001100176   ⟸   NM_001106706
- UniProtKB: D3ZTG2 (UniProtKB/TrEMBL),   A6H9X5 (UniProtKB/TrEMBL),   A0A8I6ANW3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006239816   ⟸   XM_006239754
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ANW3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000006505   ⟸   ENSRNOT00000006505
Ensembl Acc Id: ENSRNOP00000094996   ⟸   ENSRNOT00000116986

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZTG2-F1-model_v2 AlphaFold D3ZTG2 1-847 view protein structure

Transcriptome

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

Promoters
RGD ID:13694408
Promoter ID:EPDNEW_R4933
Type:multiple initiation site
Name:Ttc27_1
Description:tetratricopeptide repeat domain 27
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_6.0621,879,991 - 21,880,051EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305264 AgrOrtholog
BioCyc Gene G2FUF-38455 BioCyc
Ensembl Genes ENSRNOG00000033090 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000042932 Ensembl
Ensembl Transcript ENSRNOT00000006505.8 UniProtKB/TrEMBL
  ENSRNOT00000116986 ENTREZGENE
  ENSRNOT00000116986.2 UniProtKB/TrEMBL
  ENSRNOT00000127991.1 UniProtKB/TrEMBL
  ENSRNOT00000132162.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
InterPro TPR-like_helical UniProtKB/TrEMBL
  TPR_repeat UniProtKB/TrEMBL
  TTC27/Emw1 UniProtKB/TrEMBL
KEGG Report rno:298782 UniProtKB/TrEMBL
NCBI Gene 298782 ENTREZGENE
PANTHER PTHR16193 UniProtKB/TrEMBL
  TETRATRICOPEPTIDE REPEAT PROTEIN 27 UniProtKB/TrEMBL
Pfam TPR_16 UniProtKB/TrEMBL
PhenoGen Ttc27 PhenoGen
PROSITE TPR UniProtKB/TrEMBL
RatGTEx ENSRNOG00000033090 RatGTEx
  ENSRNOG00000042932 RatGTEx
SMART TPR UniProtKB/TrEMBL
Superfamily-SCOP SSF48452 UniProtKB/TrEMBL
UniProt A0A8I6ANW3 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LQQ3_RAT UniProtKB/TrEMBL
  A0ABK0LXP0_RAT UniProtKB/TrEMBL
  A6H9X5 ENTREZGENE, UniProtKB/TrEMBL
  D3ZTG2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Ttc27  tetratricopeptide repeat domain 27  RGD1305264_predicted  similar to hypothetical protein FLJ20272 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1305264_predicted  similar to hypothetical protein FLJ20272 (predicted)  LOC298782_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC298782_predicted  similar to hypothetical protein FLJ20272 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL