AP002008.3 (novel transcript, sense intronic to POU2AF1) - Rat Genome Database

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Gene: AP002008.3 (novel transcript, sense intronic to POU2AF1) Homo sapiens
Analyze
Symbol: AP002008.3
Name: novel transcript, sense intronic to POU2AF1
RGD ID: 16560743
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: LOC100132078; uncharacterized LOC100132078
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811111,414,242 - 111,418,186 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11111,414,242 - 111,418,186 (-)EnsemblGRCh38hg38GRCh38
GRCh3711111,284,967 - 111,288,911 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map11q23.1NCBI
HuRef11107,209,668 - 107,213,596 (-)NCBIHuRef
CHM1_111111,168,067 - 111,171,996 (-)NCBICHM1_1
T2T-CHM13v2.011111,424,362 - 111,428,304 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:12477932  


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
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:102
Count of miRNA genes:102
Interacting mature miRNAs:102
Transcripts:ENST00000528614
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
High
Medium 1
Low 6 13 149 1 3 162 18 12
Below cutoff 517 458 324 151 685 22 675 346 648 79 610 499 129 151 479

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000528614
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl11111,414,242 - 111,418,186 (-)Ensembl
RefSeq Acc Id: NR_046085
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3811111,414,242 - 111,418,186 (-)NCBI
T2T-CHM13v2.011111,424,362 - 111,428,304 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC AP002008.3 COSMIC
Ensembl Genes ENSG00000255428 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000528614 ENTREZGENE
GTEx ENSG00000255428 GTEx
Human Proteome Map AP002008.3 Human Proteome Map
NCBI Gene LOC100132078 ENTREZGENE
RNAcentral URS000075DA32 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-06-25 AP002008.3  novel transcript, sense intronic to POU2AF1  LOC100132078  uncharacterized LOC100132078  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC100132078  uncharacterized LOC100132078  AP002008.3  novel transcript, sense intronic to POU2AF1  Symbol and/or name change 5135510 APPROVED