TNRC6B-DT (TNRC6B divergent transcript) - Rat Genome Database

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Gene: TNRC6B-DT (TNRC6B divergent transcript) Homo sapiens
Analyze
Symbol: TNRC6B-DT
Name: TNRC6B divergent transcript
RGD ID: 16563148
HGNC Page HGNC:55373
Description: INTERACTS WITH dimethylselenide; hydroxyl; ozone
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: LOC114841040; novel transcript, antisense to FAM83F; uncharacterized LOC114841040; Z83847.1
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382240,043,130 - 40,044,530 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2240,043,068 - 40,044,565 (-)EnsemblGRCh38hg38GRCh38
GRCh372240,439,134 - 40,440,534 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map22q13.1NCBI
T2T-CHM13v2.02240,514,693 - 40,516,093 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
dimethylselenide  (EXP)
hydroxyl  (EXP)
ozone  (EXP)

References
Additional References at PubMed
PMID:12477932  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 22q12.3-13.33(chr22:37061769-50738932)x3 copy number gain See cases [RCV000051684] Chr22:37061769..50738932 [GRCh38]
Chr22:37457809..51177360 [GRCh37]
Chr22:35787755..49524226 [NCBI36]
Chr22:22q12.3-13.33		 pathogenic
GRCh38/hg38 22q11.1-13.33(chr22:16916743-50739785)x3 copy number gain See cases [RCV000134730] Chr22:16916743..50739785 [GRCh38]
Chr22:17397633..51178213 [GRCh37]
Chr22:15777633..49525079 [NCBI36]
Chr22:22q11.1-13.33		 pathogenic
GRCh38/hg38 22q12.3-13.33(chr22:33768441-50739977)x3 copy number gain See cases [RCV000051682] Chr22:33768441..50739977 [GRCh38]
Chr22:34164428..51178405 [GRCh37]
Chr22:32494428..49525271 [NCBI36]
Chr22:22q12.3-13.33		 pathogenic
GRCh38/hg38 22q13.1-13.2(chr22:37721797-40860953)x3 copy number gain See cases [RCV000051685] Chr22:37721797..40860953 [GRCh38]
Chr22:38117804..41256957 [GRCh37]
Chr22:36447750..39586903 [NCBI36]
Chr22:22q13.1-13.2		 pathogenic
GRCh38/hg38 22q11.1-13.33(chr22:16916608-50739836)x3 copy number gain See cases [RCV000133646] Chr22:16916608..50739836 [GRCh38]
Chr22:17397498..51178264 [GRCh37]
Chr22:15777498..49525130 [NCBI36]
Chr22:22q11.1-13.33		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:91
Count of miRNA genes:89
Interacting mature miRNAs:91
Transcripts:ENST00000569912
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


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 2 2 317
Low 11 10 213 5 186 4 151 15 221 12 133 148 1 5 40
Below cutoff 1426 1427 1167 356 970 249 2688 1161 2911 298 678 1081 117 676 1591 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000569912
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2240,043,068 - 40,044,565 (-)Ensembl
RefSeq Acc Id: NR_163486
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382240,043,130 - 40,044,530 (-)NCBI
T2T-CHM13v2.02240,514,693 - 40,516,093 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC TNRC6B-DT COSMIC
Ensembl Genes ENSG00000261202 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000569912 ENTREZGENE
GTEx ENSG00000261202 GTEx
HGNC ID HGNC:55373 ENTREZGENE
Human Proteome Map TNRC6B-DT Human Proteome Map
NCBI Gene LOC114841040 ENTREZGENE
RNAcentral URS0000EEACB1 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-11-16 TNRC6B-DT  TNRC6B divergent transcript  Z83847.1  novel transcript, antisense to FAM83F  Symbol and/or name change 19259463 PROVISIONAL
2020-07-02 Z83847.1  novel transcript, antisense to FAM83F  LOC114841040  uncharacterized LOC114841040  Symbol and/or name change 19259462 PROVISIONAL
2020-06-30 LOC114841040  uncharacterized LOC114841040  Z83847.1  novel transcript, antisense to FAM83F  Symbol and/or name change 5135510 APPROVED
2020-06-25 Z83847.1  novel transcript, antisense to FAM83F  LOC114841040  uncharacterized LOC114841040  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC114841040  uncharacterized LOC114841040  Z83847.1  novel transcript, antisense to FAM83F  Symbol and/or name change 5135510 APPROVED