Tlcd2 (TLC domain containing 2) - Rat Genome Database
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Gene: Tlcd2 (TLC domain containing 2) Mus musculus
Analyze
Symbol: Tlcd2
Name: TLC domain containing 2
RGD ID: 1557575
MGI Page MGI
Description: Is expressed in several structures, including central nervous system and retina. Orthologous to human TLCD2 (TLC domain containing 2); INTERACTS WITH 1,2-dichloroethane; 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 2010305C02Rik; RP23-384C18.8; TLC domain-containing protein 2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
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
GRCm391175,358,771 - 75,361,725 (+)NCBIGRCm39mm39
GRCm39 Ensembl1175,352,541 - 75,361,725 (+)Ensembl
GRCm381175,468,024 - 75,470,899 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1175,461,715 - 75,470,899 (+)EnsemblGRCm38mm10GRCm38
MGSCv371175,281,581 - 75,284,147 (+)NCBIGRCm37mm9NCBIm37
MGSCv361175,284,274 - 75,286,840 (+)NCBImm8
Celera1182,976,475 - 82,979,054 (+)NCBICelera
Cytogenetic Map11B5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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:15226823   PMID:16141072   PMID:16141073   PMID:21677750   PMID:21873635  


Genomics

Comparative Map Data
Tlcd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391175,358,771 - 75,361,725 (+)NCBIGRCm39mm39
GRCm39 Ensembl1175,352,541 - 75,361,725 (+)Ensembl
GRCm381175,468,024 - 75,470,899 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1175,461,715 - 75,470,899 (+)EnsemblGRCm38mm10GRCm38
MGSCv371175,281,581 - 75,284,147 (+)NCBIGRCm37mm9NCBIm37
MGSCv361175,284,274 - 75,286,840 (+)NCBImm8
Celera1182,976,475 - 82,979,054 (+)NCBICelera
Cytogenetic Map11B5NCBI
TLCD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl171,702,816 - 1,710,377 (-)EnsemblGRCh38hg38GRCh38
GRCh38171,702,816 - 1,710,377 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37171,606,110 - 1,613,671 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36171,557,814 - 1,560,921 (-)NCBINCBI36hg18NCBI36
Celera171,621,786 - 1,629,366 (-)NCBI
Cytogenetic Map17p13.3NCBI
HuRef171,505,775 - 1,513,350 (-)NCBIHuRef
CHM1_1171,615,833 - 1,623,429 (-)NCBICHM1_1
Tlcd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21060,310,577 - 60,314,263 (+)NCBI
Rnor_6.0 Ensembl1062,303,662 - 62,306,888 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01062,303,124 - 62,306,198 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01062,017,189 - 62,020,248 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41062,786,854 - 62,791,350 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1059,339,008 - 59,342,082 (+)NCBICelera
Cytogenetic Map10q24NCBI
Tlcd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554811,475,045 - 1,477,901 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554811,475,748 - 1,478,447 (+)NCBIChiLan1.0ChiLan1.0
TLCD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1171,584,596 - 1,587,761 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl171,585,185 - 1,587,671 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0171,689,536 - 1,692,855 (-)NCBIMhudiblu_PPA_v0panPan3
TLCD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl945,845,294 - 45,848,583 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1945,845,870 - 45,849,413 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
TLCD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1247,904,172 - 47,915,521 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11247,904,150 - 47,918,257 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TLCD2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1161,361,623 - 1,364,985 (-)NCBI
ChlSab1.1 Ensembl161,362,235 - 1,364,738 (-)Ensembl
Tlcd2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247864,411,584 - 4,422,893 (-)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
13208559Wght10_mweight 10 (mouse)11400000089000000Mouse
13208558Lgth12_mbody length 12 (mouse)11400000095000000Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11693027789128908Mouse
1357859Lvrq7_mliver weight QTL 7 (mouse)Not determined1112318637118131898Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112318637118131898Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1917420497007000Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112185736495990405Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113600000085000000Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113639175083590530Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114236579176365904Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114236579176365904Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114473921176963931Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44739211113167183Mouse
4141000Nidd3_mnon-insulin-dependent diabetes mellitus 3 (mouse)Not determined4515120179151308Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114527504680087498Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114581775489927907Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114629434180294436Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114642858180428696Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115018736584187585Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115260355986603559Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115349976287499911Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115423592683842826Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156973201114267131Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115786383491863932Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15861720487804412Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5882844085175703Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116179599488808902Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116226517996265327Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162700000109500000Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116342858181939647Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116342858194173092Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116493951098939647Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116493951098939647Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116493951098939647Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166842594100842826Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166842594100842826Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66842594100842826Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166842594100842826Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166842594100842826Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166842594100842826Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116718736579923086Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168300000102000000Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170800372104800540Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170800372104800540Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170800372104800540Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170800372104800540Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172128823106128908Mouse
1301078Alcp2_malcohol preference locus 2 (mouse)Not determined117231897084840636Mouse
1301310Tmevd5_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 5 (mouse)Not determined1172835299106835463Mouse
4142348Pstc2_mperiosteal circumference 2 (mouse)Not determined1172927789106927907Mouse
10043866Adip19_madiposity 19 (mouse)Not determined1172927789106927907Mouse
12903994Opfaq3_mopen field activity QTL 3 (mouse)117384671582178599Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:500
Count of miRNA genes:355
Interacting mature miRNAs:391
Transcripts:ENSMUST00000043598, ENSMUST00000108435, ENSMUST00000124718, ENSMUST00000153236
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000043598   ⟹   ENSMUSP00000042958
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1175,468,079 - 75,470,657 (+)Ensembl
RefSeq Acc Id: ENSMUST00000108435   ⟹   ENSMUSP00000104074
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1175,468,079 - 75,470,899 (+)Ensembl
RefSeq Acc Id: ENSMUST00000124718
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1175,461,715 - 75,469,663 (+)Ensembl
RefSeq Acc Id: ENSMUST00000153236
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1175,468,711 - 75,470,203 (+)Ensembl
RefSeq Acc Id: NM_001291156   ⟹   NP_001278085
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391175,358,876 - 75,361,725 (+)NCBI
GRCm381175,468,050 - 75,470,899 (+)NCBI
Celera1182,976,446 - 82,979,308 (+)NCBI
Sequence:
RefSeq Acc Id: NM_027249   ⟹   NP_081525
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391175,358,876 - 75,361,725 (+)NCBI
GRCm381175,468,050 - 75,470,899 (+)NCBI
MGSCv371175,281,581 - 75,284,147 (+)RGD
Celera1182,976,446 - 82,979,308 (+)NCBI
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_011249099   ⟹   XP_011247401
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391175,358,771 - 75,361,717 (+)NCBI
GRCm381175,468,024 - 75,470,891 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_081525   ⟸   NM_027249
- Peptide Label: isoform 1
- UniProtKB: Q8VC26 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001278085   ⟸   NM_001291156
- Peptide Label: isoform 2
- UniProtKB: Q8VC26 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011247401   ⟸   XM_011249099
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSMUSP00000104074   ⟸   ENSMUST00000108435
RefSeq Acc Id: ENSMUSP00000042958   ⟸   ENSMUST00000043598
Protein Domains
TLC

Promoters
RGD ID:6820172
Promoter ID:MM_KWN:8509
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:LINCRNA_171,   NR_030711,   OTTMUST00000013984,   OTTMUST00000073516
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361175,274,061 - 75,275,247 (+)MPROMDB
RGD ID:6822322
Promoter ID:MM_KWN:8511
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:ENSMUST00000108435,   OTTMUST00000013986,   OTTMUST00000013987
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361175,280,906 - 75,281,782 (+)MPROMDB
RGD ID:8675544
Promoter ID:EPDNEW_M15803
Type:multiple initiation site
Name:Tlcd2_1
Description:Mus musculus TLC domain containing 2 , transcript variant 1,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15804  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381175,468,069 - 75,468,129EPDNEW
RGD ID:8675546
Promoter ID:EPDNEW_M15804
Type:initiation region
Name:Tlcd2_2
Description:Mus musculus TLC domain containing 2 , transcript variant 1,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15803  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381175,468,192 - 75,468,252EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1917141 AgrOrtholog
Ensembl Genes ENSMUSG00000038217 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000042958 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000104074 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000043598 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000108435 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro TLC-dom UniProtKB/Swiss-Prot
KEGG Report mmu:380712 UniProtKB/Swiss-Prot
MGD MGI:1917141 ENTREZGENE
NCBI Gene 380712 ENTREZGENE
Pfam TRAM_LAG1_CLN8 UniProtKB/Swiss-Prot
PhenoGen Tlcd2 PhenoGen
PROSITE TLC UniProtKB/Swiss-Prot
SMART TLC UniProtKB/Swiss-Prot
UniProt Q8VC26 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q9D837 UniProtKB/Swiss-Prot