TLCD3B (TLC domain containing 3B) - Rat Genome Database

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Gene: TLCD3B (TLC domain containing 3B) Chlorocebus sabaeus
Analyze
Symbol: TLCD3B
Name: TLC domain containing 3B
RGD ID: 18791811
Description: ENCODES a protein that exhibits sphingosine N-acyltransferase activity (inferred); INVOLVED IN ceramide biosynthetic process (ortholog); negative regulation of fat cell differentiation (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); autistic disorder (ortholog); chromosome 16p11.2 deletion syndrome, 593-kb (ortholog); FOUND IN endoplasmic reticulum (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ceramide synthase; FAM57B; family with sequence similarity 57 member B; protein FAM57B; TLC domain ceramide synthase 3B
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1526,626,643 - 26,639,343 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl526,632,509 - 26,639,356 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660682,896,797 - 2,909,155 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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:22301074   PMID:30032202  


Genomics

Comparative Map Data
TLCD3B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1526,626,643 - 26,639,343 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl526,632,509 - 26,639,356 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660682,896,797 - 2,909,155 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
TLCD3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381630,024,427 - 30,053,040 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1630,024,427 - 30,052,978 (-)EnsemblGRCh38hg38GRCh38
GRCh371630,035,748 - 30,047,851 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361629,943,249 - 29,949,687 (-)NCBINCBI36Build 36hg18NCBI36
Celera1672,753,538 - 72,759,976 (+)NCBICelera
Cytogenetic Map16p11.2NCBI
HuRef1627,697,067 - 27,703,422 (-)NCBIHuRef
CHM1_11631,251,553 - 31,257,991 (-)NCBICHM1_1
T2T-CHM13v2.01630,307,060 - 30,335,676 (-)NCBIT2T-CHM13v2.0
Tlcd3b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397126,413,213 - 126,429,391 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7126,396,840 - 126,429,391 (+)EnsemblGRCm39 Ensembl
GRCm387126,814,041 - 126,830,219 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7126,797,668 - 126,830,219 (+)EnsemblGRCm38mm10GRCm38
MGSCv377133,960,399 - 133,973,733 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367133,960,399 - 133,973,731 (+)NCBIMGSCv36mm8
Celera7126,665,150 - 126,678,419 (+)NCBICelera
Cytogenetic Map7F3NCBI
cM Map769.25NCBI
Tlcd3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81190,851,582 - 190,870,278 (+)NCBIGRCr8
mRatBN7.21181,421,104 - 181,439,744 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1181,422,830 - 181,439,743 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1189,784,668 - 189,791,006 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01196,970,743 - 196,977,081 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01189,638,138 - 189,644,471 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01198,252,208 - 198,265,840 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1198,259,496 - 198,265,839 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01205,232,134 - 205,246,008 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41186,002,136 - 186,008,480 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11186,151,896 - 186,157,854 (+)NCBI
Celera1179,088,821 - 179,095,165 (+)NCBICelera
Cytogenetic Map1q36NCBI
Tlcd3b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554936,929,477 - 6,942,227 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554936,929,477 - 6,940,109 (+)NCBIChiLan1.0ChiLan1.0
TLCD3B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21830,774,196 - 30,786,346 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11635,439,678 - 35,451,688 (+)NCBINHGRI_mPanPan1
PanPan1.11630,399,811 - 30,411,777 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1630,399,815 - 30,406,663 (-)Ensemblpanpan1.1panPan2
TLCD3B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1618,053,841 - 18,062,755 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl618,054,632 - 18,055,914 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha619,630,441 - 19,647,665 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0618,187,619 - 18,205,016 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl618,187,624 - 18,194,260 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1617,986,813 - 18,003,971 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0617,902,164 - 17,919,371 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0618,217,788 - 18,234,988 (-)NCBIUU_Cfam_GSD_1.0
Tlcd3b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344124,324,946 - 124,353,101 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650112,435,051 - 12,450,675 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650112,435,058 - 12,450,961 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TLCD3B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl318,223,875 - 18,231,844 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1318,224,652 - 18,231,416 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Tlcd3b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478213,203,963 - 13,213,797 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478213,203,954 - 13,212,174 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 20 22
Low 14 10 38
Below cutoff 2 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000004197   ⟹   ENSCSAP00000002462
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl526,632,509 - 26,639,356 (+)Ensembl
RefSeq Acc Id: XM_007989568   ⟹   XP_007987759
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1526,626,643 - 26,639,343 (+)NCBI
Vero_WHO_p1.0NW_0236660682,896,797 - 2,909,155 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007989584   ⟹   XP_007987775
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1526,632,839 - 26,639,343 (+)NCBI
Vero_WHO_p1.0NW_0236660682,896,797 - 2,903,726 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007987759 (Get FASTA)   NCBI Sequence Viewer  
  XP_007987775 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000002462.1
Reference Protein Sequences
RefSeq Acc Id: XP_007987759   ⟸   XM_007989568
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007987775   ⟸   XM_007989584
- Peptide Label: isoform X1
- UniProtKB: A0A0D9R1H3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000002462   ⟸   ENSCSAT00000004197


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000006160 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000004197.1 UniProtKB/TrEMBL
InterPro TLC-dom UniProtKB/TrEMBL
NCBI Gene TLCD3B ENTREZGENE
PANTHER CERAMIDE SYNTHASE UniProtKB/TrEMBL
  CT120 PROTEIN UniProtKB/TrEMBL
Pfam TRAM_LAG1_CLN8 UniProtKB/TrEMBL
PROSITE TLC UniProtKB/TrEMBL
SMART TLC UniProtKB/TrEMBL
UniProt A0A0D9R1H3 ENTREZGENE, UniProtKB/TrEMBL