AC112487.1 (novel transcript) - Rat Genome Database

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Gene: AC112487.1 (novel transcript) Homo sapiens
Analyze
Symbol: AC112487.1
Name: novel transcript
RGD ID: 16557242
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: LOC105374042; uncharacterized LOC105374042
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383112,302,478 - 112,332,754 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3112,302,478 - 112,332,791 (+)EnsemblGRCh38hg38GRCh38
GRCh373112,021,325 - 112,051,601 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map3q13.2NCBI
T2T-CHM13v2.03115,023,533 - 115,053,816 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics

Variants

.
Variants in AC112487.1
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 3q13.11-13.31(chr3:104621220-116093884)x3 copy number gain See cases [RCV000051722] Chr3:104621220..116093884 [GRCh38]
Chr3:104340064..115812731 [GRCh37]
Chr3:105822754..117295421 [NCBI36]
Chr3:3q13.11-13.31		 pathogenic
GRCh38/hg38 3q13.2-13.31(chr3:112168829-117393356)x1 copy number loss See cases [RCV000050766] Chr3:112168829..117393356 [GRCh38]
Chr3:111887676..117112203 [GRCh37]
Chr3:113370366..118594893 [NCBI36]
Chr3:3q13.2-13.31		 pathogenic
GRCh38/hg38 3q13.13-13.31(chr3:108242572-116169331)x1 copy number loss See cases [RCV000051544] Chr3:108242572..116169331 [GRCh38]
Chr3:107961419..115888178 [GRCh37]
Chr3:109444109..117370868 [NCBI36]
Chr3:3q13.13-13.31		 pathogenic
GRCh38/hg38 3q11.1-24(chr3:93800620-145695381)x3 copy number gain See cases [RCV000142340] Chr3:93800620..145695381 [GRCh38]
Chr3:93519464..145413168 [GRCh37]
Chr3:95002154..146895858 [NCBI36]
Chr3:3q11.1-24		 pathogenic
GRCh38/hg38 3q13.11-29(chr3:103426882-198110178)x3 copy number gain See cases [RCV000134948] Chr3:103426882..198110178 [GRCh38]
Chr3:103145726..197837049 [GRCh37]
Chr3:104628416..199321446 [NCBI36]
Chr3:3q13.11-29		 pathogenic
GRCh38/hg38 3q11.1-13.31(chr3:93819623-116887056)x1 copy number loss See cases [RCV000135320] Chr3:93819623..116887056 [GRCh38]
Chr3:93538467..116605903 [GRCh37]
Chr3:95021157..118088593 [NCBI36]
Chr3:3q11.1-13.31		 pathogenic
GRCh38/hg38 3q11.2-13.31(chr3:97795369-115663349)x1 copy number loss See cases [RCV000138186] Chr3:97795369..115663349 [GRCh38]
Chr3:97514213..115382196 [GRCh37]
Chr3:98996903..116864886 [NCBI36]
Chr3:3q11.2-13.31		 pathogenic|uncertain significance
GRCh38/hg38 3q11.1-21.1(chr3:93886671-123216683)x1 copy number loss See cases [RCV000051543] Chr3:93886671..123216683 [GRCh38]
Chr3:93605515..122935530 [GRCh37]
Chr3:95088205..124418220 [NCBI36]
Chr3:3q11.1-21.1		 pathogenic
GRCh38/hg38 3q11.1-21.2(chr3:93979547-124774010)x1 copy number loss Chromosome 3q13.31 deletion syndrome [RCV003327614] Chr3:93979547..124774010 [GRCh38]
Chr3:3q11.1-21.2		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:266
Count of miRNA genes:249
Interacting mature miRNAs:253
Transcripts:ENST00000498032, ENST00000607456
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 1 3 8 2 8 1
Low 91 16 326 3 86 3 263 6 78 54 412 315 1 14 2
Below cutoff 1144 1223 873 178 489 90 1888 785 1489 272 571 990 98 560 1122 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000498032
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3112,302,478 - 112,332,791 (+)Ensembl
RefSeq Acc Id: ENST00000607456
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3112,307,121 - 112,330,324 (+)Ensembl
RefSeq Acc Id: NR_147411
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh383112,302,478 - 112,332,754 (+)NCBI
T2T-CHM13v2.03115,023,533 - 115,053,816 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC AC112487.1 COSMIC
Ensembl Genes ENSG00000239482 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000498032 ENTREZGENE
GTEx ENSG00000239482 GTEx
Human Proteome Map AC112487.1 Human Proteome Map
NCBI Gene LOC105374042 ENTREZGENE
RNAcentral URS0000BC4409 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-07-02 AC112487.1  novel transcript  LOC105374042  uncharacterized LOC105374042  Symbol and/or name change 19259462 PROVISIONAL
2020-06-30 LOC105374042  uncharacterized LOC105374042  AC112487.1  novel transcript  Symbol and/or name change 5135510 APPROVED
2020-06-25 AC112487.1  novel transcript  LOC105374042  uncharacterized LOC105374042  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC105374042  uncharacterized LOC105374042  AC112487.1  novel transcript  Symbol and/or name change 5135510 APPROVED