Ttc39d (tetratricopeptide repeat domain 39D) - Rat Genome Database

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Gene: Ttc39d (tetratricopeptide repeat domain 39D) Mus musculus
Analyze
Symbol: Ttc39d
Name: tetratricopeptide repeat domain 39D
RGD ID: 1323166
MGI Page MGI
Description: Predicted to be involved in several processes, including cholesterol homeostasis; negative regulation of cholesterol storage; and regulation of cholesterol efflux. Orthologous to human TTC39DP (tetratricopeptide repeat domain 39D, pseudogene); INTERACTS WITH lead diacetate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 4930560E09Rik
RGD Orthologs
Human
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391780,523,343 - 80,525,365 (+)NCBIGRCm39mm39
GRCm39 Ensembl1780,514,889 - 80,525,365 (+)Ensembl
GRCm381780,215,914 - 80,217,936 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1780,207,460 - 80,217,936 (+)EnsemblGRCm38mm10GRCm38
MGSCv371780,615,254 - 80,617,276 (+)NCBIGRCm37mm9NCBIm37
MGSCv361780,124,240 - 80,126,262 (+)NCBImm8
Celera1784,532,630 - 84,534,652 (+)NCBICelera
Cytogenetic Map17E3NCBI
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

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21267068   PMID:21873635  


Genomics

Comparative Map Data
Ttc39d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391780,523,343 - 80,525,365 (+)NCBIGRCm39mm39
GRCm39 Ensembl1780,514,889 - 80,525,365 (+)Ensembl
GRCm381780,215,914 - 80,217,936 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1780,207,460 - 80,217,936 (+)EnsemblGRCm38mm10GRCm38
MGSCv371780,615,254 - 80,617,276 (+)NCBIGRCm37mm9NCBIm37
MGSCv361780,124,240 - 80,126,262 (+)NCBImm8
Celera1784,532,630 - 84,534,652 (+)NCBICelera
Cytogenetic Map17E3NCBI
TTC39DP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl238,763,534 - 38,765,221 (+)EnsemblGRCh38hg38GRCh38
GRCh38238,763,585 - 38,765,200 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37238,990,727 - 38,992,342 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36238,844,078 - 38,845,876 (+)NCBINCBI36hg18NCBI36
Celera238,831,776 - 38,833,391 (+)NCBI
Cytogenetic Map2p22.1NCBI
HuRef238,729,492 - 38,731,107 (+)NCBIHuRef
CHM1_1238,921,389 - 38,923,004 (+)NCBICHM1_1


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301338Lmr1_mleishmaniasis resistance 1 (mouse)Not determined17986241186688972Mouse
4142150Stheal11_msoft tissue heal 11 (mouse)Not determined171206732483054339Mouse
26884428Cvht3_mcranial vault height 3, 5 week (mouse)174620000082100000Mouse
1357754Ahl3_mage related hearing loss 3 (mouse)Not determined174989696283897108Mouse
1357532Bmch7_mbone mechanical trait 7 (mouse)Not determined175145143085451617Mouse
4141879Chlq9_mcirculating hormone level QTL 9 (mouse)Not determined175145143085451617Mouse
4141758Pstc5_mperiosteal circumference 5 (mouse)Not determined175680065690800808Mouse
4141011Bmd26_mbone mineral density 26 (mouse)Not determined175680065690800808Mouse
1300735Pgia20_mproteoglycan induced arthritis 20 (mouse)Not determined175680065690800808Mouse
1357447Heal13_mwound healing/regeneration 13 (mouse)Not determined175680065690800808Mouse
12910536Nrq8a_mnoise-induced hearing loss resistant QTL 8a (mouse)175680065690800808Mouse
12910537Nrq8_mnoise-induced hearing loss resistant QTL 8 (mouse)175680065690800808Mouse
4142201Obrq15_mobesity resistance QTL 15 (mouse)Not determined5722744780578347Mouse
4142414Pregq4_mpregnancy QTL 4 (mouse)Not determined175722744793199751Mouse
4141040Hmtb9_mhemostasis and thrombosis rebleeding time 9 (mouse)Not determined5728209491282202Mouse
1301107Scc4_mcolon tumor susceptibility 4 (mouse)Not determined176199358194987271Mouse
11528551Sluc32_msusceptibility to lung cancer 32 (mouse)176199358194987271Mouse
1302017Aliq3_macute lung injury QTL 3 (mouse)Not determined176357811994987271Mouse
1301728Ffal1_mfree fatty acid level 1 (mouse)Not determined176490750994987271Mouse
14928308Manh82_mmandible shape 82 (mouse)176600781494987271Mouse
4142256Nilac12_mnicotine induced locomotor activity 12 (mouse)Not determined176863389194987271Mouse
11039498Ltpr7b_mLeishmania tropica response 7b (mouse)177039377094987271Mouse
11039499Ltpr7a_mLeishmania tropica response 7a (mouse)177039377094987271Mouse
11039500Ltpr7c_mLeishmania tropica response 7c (mouse)177039377094987271Mouse
11039514Ltpr7_mLeishmania tropica response 7 (mouse)177039377094987271Mouse
1357528Nhdlq3_mnon-HDL QTL 3 (mouse)Not determined177308770494987271Mouse
4141195Nilac11_mnicotine induced locomotor activity 11 (mouse)Not determined177308770494987271Mouse
4141697Hbnr3_mHeligmosomoides bakeri nematode resistance 3 (mouse)Not determined7380065693199751Mouse
1357552Aaj4_manxiety in A/J 4 (mouse)Not determined177428209490087842Mouse
1357646Axtq3_manxiety QTL 3 (mouse)Not determined177428209490087842Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:176
Count of miRNA genes:79
Interacting mature miRNAs:86
Transcripts:ENSMUST00000053168, ENSMUST00000134652
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000053168   ⟹   ENSMUSP00000053781
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1780,215,914 - 80,217,935 (+)Ensembl
RefSeq Acc Id: ENSMUST00000134652   ⟹   ENSMUSP00000123158
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1780,207,460 - 80,217,936 (+)Ensembl
RefSeq Acc Id: NM_026351   ⟹   NP_080627
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391780,523,343 - 80,525,365 (+)NCBI
GRCm381780,215,914 - 80,217,936 (+)ENTREZGENE
MGSCv371780,615,254 - 80,617,276 (+)RGD
Celera1784,532,630 - 84,534,652 (+)RGD
cM Map17 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_080627 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI18947 (Get FASTA)   NCBI Sequence Viewer  
  AAI18948 (Get FASTA)   NCBI Sequence Viewer  
  BAB30139 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_080627   ⟸   NM_026351
- UniProtKB: Q0VF76 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000053781   ⟸   ENSMUST00000053168
RefSeq Acc Id: ENSMUSP00000123158   ⟸   ENSMUST00000134652


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1914987 AgrOrtholog
Ensembl Genes ENSMUSG00000046196 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000053781 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000123158 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000053168 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000134652 UniProtKB/TrEMBL
InterPro OMP_IML2_mit/TPR_39 UniProtKB/TrEMBL
  TPR-like_helical UniProtKB/TrEMBL
KEGG Report mmu:67737 UniProtKB/TrEMBL
MGD MGI:1914987 ENTREZGENE
NCBI Gene 67737 ENTREZGENE
PANTHER PTHR31859 UniProtKB/TrEMBL
Pfam DUF3808 UniProtKB/TrEMBL
PhenoGen Ttc39d PhenoGen
Superfamily-SCOP SSF48452 UniProtKB/TrEMBL
UniProt Q0VF76 ENTREZGENE, UniProtKB/TrEMBL
  Q9CUG7_MOUSE UniProtKB/TrEMBL