TMEM123-DT (TMEM123 divergent transcript) - Rat Genome Database

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Gene: TMEM123-DT (TMEM123 divergent transcript) Homo sapiens
Analyze
Symbol: TMEM123-DT
Name: TMEM123 divergent transcript
RGD ID: 16560698
HGNC Page HGNC:55502
Description: INTERACTS WITH perfluorooctanoic acid
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: AP001830.1; LOC101928424; uncharacterized LOC101928424
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811102,452,919 - 102,462,038 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11102,452,919 - 102,462,008 (+)EnsemblGRCh38hg38GRCh38
GRCh3711102,323,650 - 102,332,769 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map11q22.2NCBI
HuRef1198,250,430 - 98,259,549 (+)NCBIHuRef
CHM1_111102,206,622 - 102,215,775 (+)NCBICHM1_1
T2T-CHM13v2.011102,455,046 - 102,464,163 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 11q22.1-25(chr11:100348599-135040246)x3 copy number gain See cases [RCV000053638] Chr11:100348599..135040246 [GRCh38]
Chr11:100219331..134910140 [GRCh37]
Chr11:99724541..134415350 [NCBI36]
Chr11:11q22.1-25		 pathogenic
GRCh38/hg38 11q14.3-22.3(chr11:91086659-109595582)x1 copy number loss See cases [RCV000138038] Chr11:91086659..109595582 [GRCh38]
Chr11:90819827..109466308 [GRCh37]
Chr11:90459475..108971518 [NCBI36]
Chr11:11q14.3-22.3		 pathogenic
GRCh38/hg38 11q14.1-22.2(chr11:85242847-102920097)x1 copy number loss See cases [RCV000052711] Chr11:85242847..102920097 [GRCh38]
Chr11:84953891..102738968 [GRCh37]
Chr11:84631539..102296037 [NCBI36]
Chr11:11q14.1-22.2		 pathogenic
GRCh38/hg38 11q14.1-22.3(chr11:78232836-106779420)x1 copy number loss See cases [RCV000052710] Chr11:78232836..106779420 [GRCh38]
Chr11:77943882..106650146 [GRCh37]
Chr11:77621530..106155356 [NCBI36]
Chr11:11q14.1-22.3		 pathogenic
GRCh38/hg38 11q22.1-22.3(chr11:98357901-106059146)x1 copy number loss See cases [RCV000136574] Chr11:98357901..106059146 [GRCh38]
Chr11:98228629..105929873 [GRCh37]
Chr11:97733839..105435083 [NCBI36]
Chr11:11q22.1-22.3		 pathogenic
GRCh38/hg38 11q22.1-22.3(chr11:101452984-104044105)x3 copy number gain See cases [RCV000136846] Chr11:101452984..104044105 [GRCh38]
Chr11:101323715..103914833 [GRCh37]
Chr11:100828925..103420043 [NCBI36]
Chr11:11q22.1-22.3		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:107
Count of miRNA genes:104
Interacting mature miRNAs:107
Transcripts:ENST00000528717
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 29 1 336 29 14 30 188 271 24 361 322 186
Low 2150 1517 1347 573 1196 420 2946 862 3325 363 1052 1184 163 816 1678 3
Below cutoff 238 1235 37 19 561 13 902 1000 98 27 31 89 7 337 645 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000528717
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl11102,452,919 - 102,462,008 (+)Ensembl
RefSeq Acc Id: NR_135053
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3811102,452,919 - 102,462,038 (+)NCBI
T2T-CHM13v2.011102,455,046 - 102,464,163 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC TMEM123-DT COSMIC
Ensembl Genes ENSG00000255337 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000528717 ENTREZGENE
GTEx ENSG00000255337 GTEx
HGNC ID HGNC:55502 ENTREZGENE
Human Proteome Map TMEM123-DT Human Proteome Map
NCBI Gene LOC101928424 ENTREZGENE
RNAcentral URS0000A764DE RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-22 TMEM123-DT  TMEM123 divergent transcript  AP001830.1  novel transcript  Symbol and/or name change 19259463 PROVISIONAL
2020-06-25 AP001830.1  novel transcript  LOC101928424  uncharacterized LOC101928424  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC101928424  uncharacterized LOC101928424  AP001830.1  novel transcript  Symbol and/or name change 5135510 APPROVED