Ttc21b (tetratricopeptide repeat domain 21B) - Rat Genome Database

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Gene: Ttc21b (tetratricopeptide repeat domain 21B) Mus musculus
Analyze
Symbol: Ttc21b
Name: tetratricopeptide repeat domain 21B
RGD ID: 1557198
MGI Page MGI
Description: Enables chromatin binding activity. Acts upstream of or within several processes, including central nervous system development; intraciliary retrograde transport; and regulation of signal transduction. Part of intraciliary transport particle A. Is expressed in central nervous system; embryo ectoderm; limb; and somite. Used to study cystic kidney disease. Human ortholog(s) of this gene implicated in asphyxiating thoracic dystrophy 4 and nephronophthisis 12. Orthologous to human TTC21B (tetratricopeptide repeat domain 21B); INTERACTS WITH Aroclor 1254; beta-carotene; choline.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 2410066K11Rik; aln; intraflagellar transport 139 homolog; line 158; mKIAA1992; tetratricopeptide repeat protein 21B; tetratricopeptide repeat-containing hedgehog modulator 1; Thm1; TPR repeat protein 21B
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39266,014,131 - 66,087,144 (-)NCBIGRCm39mm39
GRCm39 Ensembl266,014,671 - 66,086,961 (-)Ensembl
GRCm38266,183,787 - 66,256,674 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl266,184,327 - 66,256,617 (-)EnsemblGRCm38mm10GRCm38
MGSCv37266,022,386 - 66,094,674 (-)NCBIGRCm37mm9NCBIm37
MGSCv36265,985,166 - 66,057,456 (-)NCBImm8
Celera267,863,470 - 67,935,886 (-)NCBICelera
Cytogenetic Map2C1.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Additional References at PubMed
PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11818962   PMID:12477932   PMID:15368895   PMID:16141072   PMID:16141073   PMID:17312020   PMID:18327258   PMID:19223390  
PMID:19732765   PMID:20889716   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22079090   PMID:24457600   PMID:24700869   PMID:27482817   PMID:28291836   PMID:28346501   PMID:29463793  
PMID:29615573   PMID:31730647   PMID:31877115   PMID:31914634   PMID:32325033   PMID:33683377  


Genomics

Comparative Map Data
Ttc21b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39266,014,131 - 66,087,144 (-)NCBIGRCm39mm39
GRCm39 Ensembl266,014,671 - 66,086,961 (-)Ensembl
GRCm38266,183,787 - 66,256,674 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl266,184,327 - 66,256,617 (-)EnsemblGRCm38mm10GRCm38
MGSCv37266,022,386 - 66,094,674 (-)NCBIGRCm37mm9NCBIm37
MGSCv36265,985,166 - 66,057,456 (-)NCBImm8
Celera267,863,470 - 67,935,886 (-)NCBICelera
Cytogenetic Map2C1.3NCBI
TTC21B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2165,857,475 - 165,953,851 (-)EnsemblGRCh38hg38GRCh38
GRCh382165,873,362 - 165,953,781 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372166,729,872 - 166,810,286 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362166,438,699 - 166,518,594 (-)NCBINCBI36hg18NCBI36
Build 342166,556,350 - 166,635,855NCBI
Celera2160,340,419 - 160,420,342 (-)NCBI
Cytogenetic Map2q24.3NCBI
HuRef2158,611,801 - 158,691,750 (-)NCBIHuRef
CHM1_12166,736,157 - 166,816,658 (-)NCBICHM1_1
Ttc21b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2350,861,367 - 50,935,782 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl352,286,794 - 52,361,060 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0352,286,794 - 52,361,060 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0357,297,234 - 57,298,391 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0358,917,760 - 58,990,221 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4348,147,053 - 48,222,257 (-)NCBIRGSC3.4rn4RGSC3.4
Celera350,451,676 - 50,523,656 (-)NCBICelera
Cytogenetic Map3q21NCBI
Ttc21b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554498,241,990 - 8,308,562 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554498,242,327 - 8,306,012 (+)NCBIChiLan1.0ChiLan1.0
TTC21B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B170,618,800 - 170,698,903 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B170,616,444 - 170,699,471 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B53,140,199 - 53,220,535 (-)NCBIMhudiblu_PPA_v0panPan3
TTC21B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13611,009,362 - 11,086,586 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3611,010,296 - 11,086,674 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3611,153,712 - 11,231,392 (-)NCBI
ROS_Cfam_1.03611,143,221 - 11,221,003 (-)NCBI
UMICH_Zoey_3.13611,225,004 - 11,302,809 (-)NCBI
UNSW_CanFamBas_1.03611,197,039 - 11,275,277 (-)NCBI
UU_Cfam_GSD_1.03611,309,967 - 11,387,866 (-)NCBI
Ttc21b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303128,163,380 - 128,252,674 (-)NCBI
SpeTri2.0NW_00493646913,365,168 - 13,454,340 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTC21B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1572,430,725 - 72,512,491 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11572,430,250 - 72,512,503 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21580,879,935 - 80,937,009 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TTC21B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11051,365,156 - 51,449,207 (-)NCBI
ChlSab1.1 Ensembl1051,364,889 - 51,449,183 (-)Ensembl
Vero_WHO_p1.0NW_023666040148,071,343 - 148,153,777 (+)NCBI
Ttc21b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247873,685,700 - 3,745,018 (-)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301703Bomd3_mbone mineral density 3 (mouse)Not determined26317561097175769Mouse
1301747Eae21_mexperimental allergic encephalomyelitis 21 (mouse)Not determined24843940282439590Mouse
1301480Pbwg1_mpostnatal body weight growth 1 (mouse)Not determined24193070775930831Mouse
1558738W6q1_mweight 6 weeks QTL 1 (mouse)Not determined220892967119064359Mouse
1357881Estoq1_membryo survival total QTL 1 (mouse)Not determined220892967119064359Mouse
4141406Alpq2_malcohol preference QTL 2 (mouse)Not determined25769377391693944Mouse
1301873Hsl1_mhyperoxia susceptibility locus 1 (mouse)Not determined26373981097739957Mouse
1302174Dssc2_mdextran sodium sulfate induced colitis QTL2 (mouse)Not determined224334620148858457Mouse
1558820Moo1_mmodifier of Odc1 (mouse)Not determined174843940282439590Mouse
1302085Mobe1_mmodifier of obesity 1 (mouse)Not determined24843940282439590Mouse
4141069Pbwg1.5_mpostnatal body weight growth 1.5 (mouse)Not determined4369026877690412Mouse
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388608993591306Mouse
1300761Lgth1_mbody length 1 (mouse)Not determined25187293285873081Mouse
1300788Cia2_mcollagen induced arthritis QTL 2 (mouse)Not determined24369026877690412Mouse
1357436Splq1_mspleen weight QTL 1 (mouse)Not determined220892967119064359Mouse
1559001Eae33_mexperimental allergic encephalomyelitis susceptibility 33 (mouse)Not determined23610166771779068Mouse
1300875Taste1_mtaste-saccharin preference 1 (mouse)Not determined25109283185092934Mouse
1357681Hrtq1_mheart weight QTL 1 (mouse)Not determined220892967119064359Mouse
1300568Hdl1_mhigh density lipoprotein (HDL) level 1 (mouse)Not determined24843940282439590Mouse
1300577Capsq1_mcapsaicin sensitivity related QTL 1 (mouse)Not determined22771204884183040Mouse
1300662Etohila_methanol induced locomotor activity (mouse)Not determined26317561097175769Mouse
1300671Cia4_mcollagen induced arthritis QTL 4 (mouse)Not determined24369026877690412Mouse
1301402Ap2q_malcohol preference 2 QTL (mouse)Not determined24369026877690412Mouse
1301405Etohr_methanol response acute (mouse)Not determined26317561097175769Mouse
1301411Pitm1_mprion incubation time 1 (mouse)Not determined24369026877690412Mouse
1301048Actre2_mactivity response to ethanol 2 (mouse)Not determined26317561097175769Mouse
1558966W10q9_mweight 10 weeks QTL 9 (mouse)Not determined220892967119064359Mouse
4141236Hbnr5_mHeligmosomoides bakeri nematode resistance 5 (mouse)Not determined31324555105313225Mouse
1301344Lith1_mlithogenic gene 1 (mouse)Not determined245457623145470727Mouse
1357829Lvrq1_mliver weight QTL 1 (mouse)Not determined220892967119064359Mouse
1301235Alcw4_malcohol withdrawal 4 (mouse)Not determined24843940282439590Mouse
1301109Dntcs2_mdental caries susceptibility 2 (mouse)Not determined240995481115079684Mouse
1357577Trmq3_mT cell ratio modifier QTL 3 (mouse)Not determined260690268119525037Mouse
4141186Pbwg1.8_mpostnatal body weight growth 1.8 (mouse)Not determined3590731269907394Mouse
1300645Alcp1_malcohol preference locus 1 (mouse)Not determined24533811668008524Mouse
1357454Kidq1_mkidney weight QTL 1 (mouse)Not determined220892967119064359Mouse
1558899Egq1_mearly growth QTL 1 (mouse)Not determined220892967119064359Mouse
1558915W3q1_mweight 3 weeks QTL 1 (mouse)Not determined220892967119064359Mouse
4142133Pbwg1.6_mpostnatal body weight growth 1.6 (mouse)Not determined3590731269907394Mouse
4142299Pbwg1.4_mpostnatal body weight growth 1.4 (mouse)Not determined5562407289624172Mouse
5491197Mobq5_mmultigenic obesity QTL 5 (mouse)Not determined265439402162677006Mouse
8552707Cia23_mcollagen induced arthritis QTL 23 (mouse)Not determined21212472666726109Mouse
10044002Hdl7_mHDL level 7 (mouse)Not determined26317561097175769Mouse
10053681Lith24_mlithogenic gene 24 (mouse)Not determined26317561097175769Mouse
4142447Pbwg1.7_mpostnatal body weight growth 1.7 (mouse)Not determined3590731269907394Mouse
4141809Pbwg1.1_mpostnatal body weight growth 1.1 (mouse)Not determined4830206882302151Mouse
4141854T2dm2sa_mtype 2 diabetes mellitus 2 in SMXA RI mice (mouse)Not determined229417935148533014Mouse
13506939Pbwg1.12_mpostnatal body weight growth 1.12 (mouse)26530206868873081Mouse
11038703Ltpr1_mLeishmania tropica response 1 (mouse)24008165374081799Mouse
10449145Lanq1_mlanosterol level QTL 1 (mouse)23823971367242263Mouse
12738429Lfibq18_mliver fibrosis QTL 18 (mouse)25808964792089647Mouse
39128209Lwq14_mliver weight QTL 14 (mouse)220892967119064359Mouse
13464141Hbbcq3_mhemoglobin concentration QTL 3 (mouse)25261767586617792Mouse
11532740Pbwg1.10_mpostnatal body weight growth 1.10 (mouse)24830206882302151Mouse
10755526Lymph1_mlymphocyte differential 1 (mouse)25098897084988970Mouse
10449151Hdl8_mhigh density lipoprotein (HDL) level 8 (mouse)23823971367242263Mouse
10449150Pvldlc1_mplasma VLDL-cholesterol 1 (mouse)23823971367242263Mouse
13463471Hctq6_mhematocrit QTL 6 (mouse)25261767586617792Mouse
13824983Vclq1_mcurvilinear velocity QTL 1 (mouse)262000000137000000Mouse
10755532Lymph5_mlymphocyte differential 5 (mouse)24436867378368673Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:466
Count of miRNA genes:337
Interacting mature miRNAs:373
Transcripts:ENSMUST00000102718, ENSMUST00000125446, ENSMUST00000131503, ENSMUST00000169968
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: ENSMUST00000102718   ⟹   ENSMUSP00000099779
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl266,184,327 - 66,256,617 (-)Ensembl
RefSeq Acc Id: ENSMUST00000125446   ⟹   ENSMUSP00000131758
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl266,184,643 - 66,256,592 (-)Ensembl
RefSeq Acc Id: ENSMUST00000131503
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl266,231,116 - 66,249,410 (-)Ensembl
RefSeq Acc Id: ENSMUST00000169968
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl266,218,015 - 66,235,138 (-)Ensembl
RefSeq Acc Id: NM_001047604   ⟹   NP_001041069
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39266,014,671 - 66,086,961 (-)NCBI
GRCm38266,184,327 - 66,256,617 (-)NCBI
MGSCv37266,022,386 - 66,094,674 (-)RGD
Celera267,863,468 - 67,935,886 (-)NCBI
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001290669   ⟹   NP_001277598
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39266,014,671 - 66,086,961 (-)NCBI
GRCm38266,184,327 - 66,256,617 (-)NCBI
Celera267,863,468 - 67,935,886 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006500263   ⟹   XP_006500326
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39266,014,131 - 66,087,144 (-)NCBI
GRCm38266,183,787 - 66,256,674 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030252122   ⟹   XP_030107982
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39266,014,131 - 66,087,144 (-)NCBI
GRCm38266,183,787 - 66,256,674 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001041069   ⟸   NM_001047604
- Peptide Label: isoform a
- UniProtKB: Q0HA38 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006500326   ⟸   XM_006500263
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001277598   ⟸   NM_001290669
- Peptide Label: isoform b
- UniProtKB: E9PVK4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_030107982   ⟸   XM_030252122
- Peptide Label: isoform X2
RefSeq Acc Id: ENSMUSP00000131758   ⟸   ENSMUST00000125446
RefSeq Acc Id: ENSMUSP00000099779   ⟸   ENSMUST00000102718
Protein Domains
TPR_REGION

Promoters
RGD ID:6833005
Promoter ID:MM_KWN:29474
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:ENSMUST00000090886
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36266,035,411 - 66,035,911 (-)MPROMDB
RGD ID:6833006
Promoter ID:MM_KWN:29478
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day1,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Lung,   MEF_B4,   MEF_B6
Transcripts:OTTMUST00000031324
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36266,094,514 - 66,095,014 (-)MPROMDB
RGD ID:6877458
Promoter ID:EPDNEW_M2180
Type:initiation region
Name:Ttc21b_1
Description:Mus musculus tetratricopeptide repeat domain 21B , transcriptvariant 2, 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
GRCm38266,256,638 - 66,256,698EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1920918 AgrOrtholog
Ensembl Genes ENSMUSG00000034848 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSMUSG00000068900
Ensembl Protein ENSMUSP00000099779 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000131758 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000102718 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000125446 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro TPR-contain_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPR_2 UniProtKB/TrEMBL
  TPR_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TTC21A/TTC21B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:73668 UniProtKB/Swiss-Prot
MGD MGI:1920918 ENTREZGENE
NCBI Gene 73668 ENTREZGENE
PANTHER PTHR14699 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TPR_2 UniProtKB/TrEMBL
  TPR_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ttc21b PhenoGen
PROSITE TPR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPR_REGION UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART TPR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48452 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt E9PVK4 ENTREZGENE, UniProtKB/TrEMBL
  Q0HA38 ENTREZGENE
  Q3TP46_MOUSE UniProtKB/TrEMBL
  Q3UGQ4_MOUSE UniProtKB/TrEMBL
  TT21B_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q3V1U7 UniProtKB/Swiss-Prot
  Q69Z46 UniProtKB/Swiss-Prot