Ttc23l (tetratricopeptide repeat domain 23-like) - Rat Genome Database

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Gene: Ttc23l (tetratricopeptide repeat domain 23-like) Mus musculus
Analyze
Symbol: Ttc23l
Name: tetratricopeptide repeat domain 23-like
RGD ID: 1558255
MGI Page MGI
Description: Predicted to be located in cytoplasm and cytoskeleton. Orthologous to human TTC23L (tetratricopeptide repeat domain 23 like).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 4930401A09Rik; tetratricopeptide repeat protein 23-like
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391510,497,309 - 10,559,006 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1510,500,188 - 10,558,754 (-)EnsemblGRCm39 Ensembl
GRCm381510,497,223 - 10,558,775 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1510,500,102 - 10,558,668 (-)EnsemblGRCm38mm10GRCm38
MGSCv371510,433,702 - 10,488,423 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361510,444,827 - 10,504,789 (-)NCBIMGSCv36mm8
Celera1510,305,843 - 10,360,380 (-)NCBICelera
Cytogenetic Map15A1NCBI
cM Map155.35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:15489334   PMID:16141072   PMID:16141073   PMID:18799693   PMID:21677750   PMID:21873635  


Genomics

Comparative Map Data
Ttc23l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391510,497,309 - 10,559,006 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1510,500,188 - 10,558,754 (-)EnsemblGRCm39 Ensembl
GRCm381510,497,223 - 10,558,775 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1510,500,102 - 10,558,668 (-)EnsemblGRCm38mm10GRCm38
MGSCv371510,433,702 - 10,488,423 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361510,444,827 - 10,504,789 (-)NCBIMGSCv36mm8
Celera1510,305,843 - 10,360,380 (-)NCBICelera
Cytogenetic Map15A1NCBI
cM Map155.35NCBI
TTC23L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38534,839,164 - 34,925,682 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl534,838,833 - 34,900,511 (+)EnsemblGRCh38hg38GRCh38
GRCh37534,839,269 - 34,925,787 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36534,875,026 - 34,935,324 (+)NCBINCBI36Build 36hg18NCBI36
Celera534,721,072 - 34,781,799 (+)NCBICelera
Cytogenetic Map5p13.2NCBI
HuRef534,787,782 - 34,847,729 (+)NCBIHuRef
CHM1_1534,841,468 - 34,901,927 (+)NCBICHM1_1
T2T-CHM13v2.0535,086,287 - 35,172,714 (+)NCBIT2T-CHM13v2.0
Ttc23l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8261,203,825 - 61,265,453 (-)NCBIGRCr8
mRatBN7.2259,476,666 - 59,538,313 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl259,476,669 - 59,538,282 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0260,492,314 - 60,538,551 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl260,492,256 - 60,538,088 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0284,136,482 - 84,197,625 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4259,857,877 - 59,916,848 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera259,134,717 - 59,197,145 (+)NCBICelera
Cytogenetic Map2q16NCBI
Ttc23l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542619,987,093 - 20,020,364 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542619,985,179 - 20,029,902 (+)NCBIChiLan1.0ChiLan1.0
TTC23L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2475,436,262 - 75,499,618 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1573,584,931 - 73,653,250 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0575,470,535 - 75,532,771 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1580,750,710 - 80,810,923 (-)NCBIpanpan1.1PanPan1.1panPan2
TTC23L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1473,395,974 - 73,455,567 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl473,400,166 - 73,453,498 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha473,012,406 - 73,071,821 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0473,901,731 - 73,961,222 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl473,904,118 - 73,959,170 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1473,649,284 - 73,708,403 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0473,772,742 - 73,831,929 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0474,305,963 - 74,365,826 (-)NCBIUU_Cfam_GSD_1.0
Ttc23l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213224,663,609 - 224,721,156 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365186,641,805 - 6,706,937 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTC23L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1620,443,661 - 20,478,632 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11620,441,253 - 20,491,569 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21621,343,863 - 21,402,683 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TTC23L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1433,732,841 - 33,793,975 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl433,739,203 - 33,783,489 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607124,031,988 - 24,085,744 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ttc23l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475920,022,653 - 20,052,817 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ttc23l
2352 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:288
Count of miRNA genes:239
Interacting mature miRNAs:264
Transcripts:ENSMUST00000022857, ENSMUST00000166039, ENSMUST00000167842
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357459Nhdlq7_mnon-HDL QTL 7 (mouse)Not determined15120489829Mouse
1302121Cliff_mcliff drop aversion (mouse)Not determined15120489829Mouse
1300953Bdt5_mbone density traits 5 (mouse)Not determined15120489829Mouse
5491193Mobq4_mmultigenic obesity QTL 4 (mouse)Not determined15120489829Mouse
1301662Faq8_mfluctuating asymmetry QTL 8 (mouse)Not determined15120489829Mouse
1301023Sluc24_msusceptibility to lung cancer 24 (mouse)Not determined15120489829Mouse
4141541Tglq3_mtriglyceride QTL 3 (mouse)Not determined15120489829Mouse
11062069Bpq31_mblood pressure QTL 31 (mouse)15126273195Mouse
4141446Ffaq4_mfree fatty acid QTL 4 (mouse)Not determined127101390Mouse
1300594Eae2_msusceptibility to experimental allergic encephalomyelitis 2 (mouse)Not determined15131218736Mouse
1301136Pgia8_mproteoglycan induced arthritis 8 (mouse)Not determined15324016724388176Mouse
4141358Ath22_matherosclerosis 22 (mouse)Not determined346465237464652Mouse
10401902Sicd2_mseizure-induced cell death 2 (mouse)Not determined15347438971197538Mouse
4141952W3q7_mweight 3 weeks QTL 7 (mouse)Not determined348969478601286Mouse
4142252Tailaq4_mtail length adjusted QTL 4 (mouse)Not determined348969478601286Mouse
4142448Tailq6_mtail length QTL 6 (mouse)Not determined348969478601286Mouse
1357559Scfq2_msubcutaneous fat pad weight QTL 2 (mouse)Not determined15348969478601286Mouse
1357659Epfpq4_mepididymal fat percentage QTL 4 (mouse)Not determined15348969478601286Mouse
11252136Modvl4_mmodifier of vacuolated lens (mouse)15562049439620614Mouse
26884409Bzwq16_mbi-zygomatic width QTL 16, 16 week (mouse)15612948138000244Mouse
26884384Skwq12_mskull length QTL 12, 16 week (mouse)15612948150763396Mouse
26884387Skwq8_mskull length QTL 8, 10 week (mouse)15612948168271849Mouse
26884412Bzwq10_mbi-zygomatic width QTL 10, 10 week (mouse)15612948171471849Mouse
26884417Bzwq4_mbi-zygomatic width QTL 4, 5 week (mouse)15612948172471849Mouse
27226786Feml11_mfemur length 11, 5 week (mouse)15612948175871849Mouse
27095932Ulnl11_mulna length 11, 16 week (mouse)15612948176384200Mouse
27226717Tibw4_mtibia width 4, proximal, 10 week (mouse)15612948178684200Mouse
27226734Tibmd5_mtibia midshaft diameter 5, 10 week (mouse)15612948186684201Mouse
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
26884429Zlq6_mzygomatic length QTL 6, 10 week (mouse)15682948144963396Mouse
27226721Tibw8_mtibia width 8, proximal, 16 week (mouse)15692948175871849Mouse
27226773Tibl16_mtibia length 16, 10 week (mouse)15692948175871849Mouse
27226777Tibl8_mtibia length 8, 5 week (mouse)15692948184584201Mouse
27095940Ulnl8_mulna length 8, 10 week (mouse)15722948155263396Mouse
27226759Feml17_mfemur length 17, 10 week (mouse)15762948155263396Mouse
27226755Feml22_mfemur length 22, 16 week (mouse)15762948159271849Mouse
27095922Pglq11_mpelvic girdle length QTL 11, 10 week (mouse)15812948438763395Mouse
26884439Sklq11_mskull length QTL 11, 10 week (mouse)15812948447663396Mouse
10412172Habiir5_mhyperoxic acute lung injury imprinted region 5 (mouse)Not determined15927302243311880Mouse
4140994Shali3_msurvival time to hyperoxic acute lung injury 3 (mouse)Not determined927302243311880Mouse
4141192Ssrq2_mstress response QTL 2 (mouse)Not determined927302256186850Mouse
1301433Rapop5_mradiation-induced apoptosis 5 (mouse)Not determined15927302279474762Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000022857   ⟹   ENSMUSP00000022857
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1510,504,033 - 10,558,754 (-)Ensembl
GRCm38.p6 Ensembl1510,503,947 - 10,558,668 (-)Ensembl
RefSeq Acc Id: ENSMUST00000166039
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1510,537,712 - 10,558,736 (-)Ensembl
GRCm38.p6 Ensembl1510,537,626 - 10,558,650 (-)Ensembl
RefSeq Acc Id: ENSMUST00000167842   ⟹   ENSMUSP00000155921
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1510,500,188 - 10,558,754 (-)Ensembl
GRCm38.p6 Ensembl1510,500,102 - 10,558,668 (-)Ensembl
RefSeq Acc Id: NM_001374772   ⟹   NP_001361701
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391510,500,188 - 10,558,755 (-)NCBI
GRCm381510,500,102 - 10,558,669 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001378877   ⟹   NP_001365806
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391510,500,188 - 10,558,755 (-)NCBI
GRCm381510,500,102 - 10,558,669 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001378878   ⟹   NP_001365807
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391510,530,498 - 10,558,755 (-)NCBI
GRCm381510,530,412 - 10,558,669 (-)NCBI
Sequence:
RefSeq Acc Id: NM_029430   ⟹   NP_083706
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391510,504,033 - 10,558,754 (-)NCBI
GRCm381510,503,947 - 10,558,668 (-)NCBI
MGSCv371510,433,702 - 10,488,423 (-)RGD
Celera1510,305,843 - 10,360,380 (-)RGD
cM Map15 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_017316786   ⟹   XP_017172275
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391510,504,333 - 10,559,006 (-)NCBI
GRCm381510,504,238 - 10,558,775 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030248814   ⟹   XP_030104674
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391510,497,309 - 10,559,005 (-)NCBI
GRCm381510,497,223 - 10,558,770 (-)NCBI
Sequence:
RefSeq Acc Id: NP_083706   ⟸   NM_029430
- Peptide Label: isoform 1
- UniProtKB: A3KMM7 (UniProtKB/Swiss-Prot),   Q9D5Q3 (UniProtKB/Swiss-Prot),   A6H6E9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017172275   ⟸   XM_017316786
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_030104674   ⟸   XM_030248814
- Peptide Label: isoform X2
RefSeq Acc Id: NP_001361701   ⟸   NM_001374772
- Peptide Label: isoform 2
- UniProtKB: A0A338P6B7 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001365806   ⟸   NM_001378877
- Peptide Label: isoform 3
RefSeq Acc Id: NP_001365807   ⟸   NM_001378878
- Peptide Label: isoform 4
RefSeq Acc Id: ENSMUSP00000022857   ⟸   ENSMUST00000022857
RefSeq Acc Id: ENSMUSP00000155921   ⟸   ENSMUST00000167842

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A6H6E9-F1-model_v2 AlphaFold A6H6E9 1-458 view protein structure

Promoters
RGD ID:8683412
Promoter ID:EPDNEW_M19737
Type:initiation region
Name:Ttc23l_1
Description:Mus musculus tetratricopeptide repeat domain 23-like , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381510,558,660 - 10,558,720EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1923027 AgrOrtholog
Ensembl Genes ENSMUSG00000022249 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000022857 ENTREZGENE
  ENSMUST00000022857.14 UniProtKB/Swiss-Prot
  ENSMUST00000167842 ENTREZGENE
  ENSMUST00000167842.9 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro TPR-like_helical_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPR_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TTC23/TTC23L UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:75777 UniProtKB/Swiss-Prot
MGD MGI:1923027 ENTREZGENE
NCBI Gene 75777 ENTREZGENE
PANTHER PTHR14485 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TETRATRICOPEPTIDE REPEAT PROTEIN 23-LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TPR_12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ttc23l PhenoGen
SMART TPR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48452 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A338P6B7 ENTREZGENE, UniProtKB/TrEMBL
  A3KMM7 ENTREZGENE
  A6H6E9 ENTREZGENE
  Q9D5Q3 ENTREZGENE
  TT23L_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary A3KMM7 UniProtKB/Swiss-Prot
  Q9D5Q3 UniProtKB/Swiss-Prot