Ttc41 (tetratricopeptide repeat domain 41) - Rat Genome Database

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Gene: Ttc41 (tetratricopeptide repeat domain 41) Rattus norvegicus
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Symbol: Ttc41
Name: tetratricopeptide repeat domain 41
RGD ID: 1302940
Description: Predicted to be located in cytoplasm. Orthologous to human TTC41P (tetratricopeptide repeat domain 41, pseudogene); INTERACTS WITH bisphenol A; (+)-catechin (ortholog); 2,3',4,4',5-Pentachlorobiphenyl (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 5'-nucleotidase domain containing 3; first gene upstream of Nt5dc3; Gnn; Grp94 neighboring nucleotidase; grp94-neighboring nucleotidase; MGC72977; Nt5dc3; tetratricopeptide repeat protein 41; tetratricopeptide repeat protein GNN; TPR repeat protein 41; TPR repeat protein GNN
RGD Orthologs
Human
Mouse
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8723,012,439 - 23,075,715 (+)NCBIGRCr8
mRatBN7.2721,124,909 - 21,188,191 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl721,125,105 - 21,188,189 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx723,107,050 - 23,163,001 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0725,269,757 - 25,325,713 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0725,046,832 - 25,102,780 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0727,248,115 - 27,307,601 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl727,240,876 - 27,307,580 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0727,366,514 - 27,428,199 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4723,347,868 - 23,407,011 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera718,312,103 - 18,368,123 (+)NCBICelera
Cytogenetic Map7q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. 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:15632090   PMID:15827139   PMID:18614015  


Genomics

Comparative Map Data
Ttc41
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8723,012,439 - 23,075,715 (+)NCBIGRCr8
mRatBN7.2721,124,909 - 21,188,191 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl721,125,105 - 21,188,189 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx723,107,050 - 23,163,001 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0725,269,757 - 25,325,713 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0725,046,832 - 25,102,780 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0727,248,115 - 27,307,601 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl727,240,876 - 27,307,580 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0727,366,514 - 27,428,199 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4723,347,868 - 23,407,011 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera718,312,103 - 18,368,123 (+)NCBICelera
Cytogenetic Map7q13NCBI
TTC41P
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812103,843,749 - 103,930,211 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12103,843,756 - 103,915,867 (-)EnsemblGRCh38hg38GRCh38
GRCh3712104,237,527 - 104,323,989 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612102,761,657 - 102,833,775 (-)NCBINCBI36Build 36hg18NCBI36
Celera12103,901,825 - 103,987,745 (-)NCBICelera
Cytogenetic Map12q23.3NCBI
HuRef12101,297,668 - 101,383,711 (-)NCBIHuRef
CHM1_112104,203,784 - 104,289,961 (-)NCBICHM1_1
T2T-CHM13v2.012103,805,522 - 103,891,911 (-)NCBIT2T-CHM13v2.0
Ttc41
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391086,541,675 - 86,612,708 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1086,541,675 - 86,612,708 (+)EnsemblGRCm39 Ensembl
GRCm381086,705,811 - 86,776,844 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1086,705,811 - 86,776,844 (+)EnsemblGRCm38mm10GRCm38
MGSCv371086,168,556 - 86,239,588 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361086,135,611 - 86,206,642 (+)NCBIMGSCv36mm8
Celera1088,684,567 - 88,758,625 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1043.07NCBI

Variants

.
Variants in Ttc41
306 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:193
Count of miRNA genes:134
Interacting mature miRNAs:149
Transcripts:ENSRNOT00000031946, ENSRNOT00000059545
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71557388960573889Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
2317059Aia15Adjuvant induced arthritis QTL 152.46joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)71700459862004598Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71794435762944357Rat
70207Niddm31Non-insulin dependent diabetes mellitus QTL 313.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)71816950526029351Rat
61369Mcs2Mammary carcinoma susceptibility QTL 23.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)71903280735526300Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)71965431749753746Rat
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)71965431749753746Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)71965431752888450Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)72055570529891047Rat


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 7
Low 2 28 15 18 15 74 35 34 11
Below cutoff 3 41 29 26 1 26 8 11 8

Sequence


RefSeq Acc Id: ENSRNOT00000031946   ⟹   ENSRNOP00000036382
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl721,125,105 - 21,188,189 (+)Ensembl
Rnor_6.0 Ensembl727,248,115 - 27,307,580 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000059545   ⟹   ENSRNOP00000056301
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl721,125,105 - 21,188,189 (+)Ensembl
Rnor_6.0 Ensembl727,248,115 - 27,307,580 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000091725   ⟹   ENSRNOP00000074973
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl727,240,876 - 27,267,697 (+)Ensembl
RefSeq Acc Id: NM_001170605   ⟹   NP_001164076
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,019,762 - 23,075,713 (+)NCBI
mRatBN7.2721,132,231 - 21,188,189 (+)NCBI
Rnor_6.0727,248,115 - 27,307,601 (+)NCBI
Rnor_5.0727,366,514 - 27,428,199 (+)NCBI
Celera718,312,103 - 18,368,123 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039079429   ⟹   XP_038935357
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,012,692 - 23,075,715 (+)NCBI
mRatBN7.2721,125,050 - 21,188,191 (+)NCBI
RefSeq Acc Id: XM_039079430   ⟹   XP_038935358
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,012,439 - 23,075,715 (+)NCBI
mRatBN7.2721,124,909 - 21,188,189 (+)NCBI
RefSeq Acc Id: XM_039079432   ⟹   XP_038935360
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,012,980 - 23,075,715 (+)NCBI
mRatBN7.2721,125,339 - 21,188,189 (+)NCBI
RefSeq Acc Id: XM_039079433   ⟹   XP_038935361
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,016,446 - 23,075,715 (+)NCBI
mRatBN7.2721,129,631 - 21,188,189 (+)NCBI
RefSeq Acc Id: XM_039079434   ⟹   XP_038935362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,012,692 - 23,075,715 (+)NCBI
mRatBN7.2721,125,050 - 21,188,191 (+)NCBI
RefSeq Acc Id: XM_063263759   ⟹   XP_063119829
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,017,409 - 23,075,715 (+)NCBI
RefSeq Acc Id: XM_063263760   ⟹   XP_063119830
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,012,439 - 23,075,715 (+)NCBI
RefSeq Acc Id: XM_063263761   ⟹   XP_063119831
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,012,940 - 23,075,715 (+)NCBI
RefSeq Acc Id: XM_063263762   ⟹   XP_063119832
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,012,896 - 23,033,361 (+)NCBI
RefSeq Acc Id: XR_005486663
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8723,012,692 - 23,062,440 (+)NCBI
mRatBN7.2721,125,050 - 21,174,915 (+)NCBI
RefSeq Acc Id: NP_001164076   ⟸   NM_001170605
- UniProtKB: Q6P3V7 (UniProtKB/Swiss-Prot),   F8WG20 (UniProtKB/TrEMBL),   F1LQV7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000056301   ⟸   ENSRNOT00000059545
RefSeq Acc Id: ENSRNOP00000036382   ⟸   ENSRNOT00000031946
RefSeq Acc Id: ENSRNOP00000074973   ⟸   ENSRNOT00000091725
RefSeq Acc Id: XP_038935358   ⟸   XM_039079430
- Peptide Label: isoform X1
- UniProtKB: Q6P3V7 (UniProtKB/Swiss-Prot),   F8WG20 (UniProtKB/TrEMBL),   F1LQV7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935357   ⟸   XM_039079429
- Peptide Label: isoform X1
- UniProtKB: Q6P3V7 (UniProtKB/Swiss-Prot),   F8WG20 (UniProtKB/TrEMBL),   F1LQV7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935362   ⟸   XM_039079434
- Peptide Label: isoform X2
- UniProtKB: Q6P3V7 (UniProtKB/Swiss-Prot),   F1LQV7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935360   ⟸   XM_039079432
- Peptide Label: isoform X1
- UniProtKB: Q6P3V7 (UniProtKB/Swiss-Prot),   F8WG20 (UniProtKB/TrEMBL),   F1LQV7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935361   ⟸   XM_039079433
- Peptide Label: isoform X1
- UniProtKB: Q6P3V7 (UniProtKB/Swiss-Prot),   F8WG20 (UniProtKB/TrEMBL),   F1LQV7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063119830   ⟸   XM_063263760
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063119832   ⟸   XM_063263762
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063119831   ⟸   XM_063263761
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063119829   ⟸   XM_063263759
- Peptide Label: isoform X1
Protein Domains
NACHT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6P3V7-F1-model_v2 AlphaFold Q6P3V7 1-1309 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:1302940 AgrOrtholog
BioCyc Gene G2FUF-34544 BioCyc
Ensembl Genes ENSRNOG00000026807 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031946.7 UniProtKB/TrEMBL
  ENSRNOT00000059545.5 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro NACHT_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:362863 UniProtKB/TrEMBL
NCBI Gene 362863 ENTREZGENE
PANTHER DDB1- AND CUL4-ASSOCIATED FACTOR 12-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TETRATRICOPEPTIDE REPEAT DOMAIN 41 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam NACHT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ttc41 PhenoGen
RatGTEx ENSRNOG00000026807 RatGTEx
Superfamily-SCOP SSF48452 UniProtKB/TrEMBL
  SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt F1LQV7 ENTREZGENE, UniProtKB/TrEMBL
  F8WG20 ENTREZGENE, UniProtKB/TrEMBL
  Q6P3V7 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-10-29 Ttc41  tetratricopeptide repeat domain 41  LOC362863  first gene upstream of Nt5dc3  Name and Symbol changed 629549 APPROVED
2008-09-08 LOC362863  first gene upstream of Nt5dc3  Nt5dc3  5'-nucleotidase domain containing 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Nt5dc3  5'-nucleotidase domain containing 3  Gnn  Grp94 neighboring nucleotidase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-10-12 Gnn        Symbol and Name status set to provisional 70820 PROVISIONAL