CD109-AS1 (CD109 antisense RNA 1) - Rat Genome Database

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Gene: CD109-AS1 (CD109 antisense RNA 1) Homo sapiens
Analyze
Symbol: CD109-AS1
Name: CD109 antisense RNA 1
RGD ID: 16555094
HGNC Page HGNC:55765
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: AL590428.1; LOC101928489; uncharacterized LOC101928489
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38673,693,903 - 73,696,131 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl673,693,903 - 73,696,131 (-)EnsemblGRCh38hg38GRCh38
GRCh37674,403,626 - 74,405,854 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map6q13NCBI
HuRef671,603,464 - 71,605,247 (-)NCBIHuRef
CHM1_1674,570,381 - 74,572,163 (-)NCBICHM1_1
T2T-CHM13v2.0674,871,906 - 74,874,121 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:14702039  


Genomics

Variants

.
Variants in CD109-AS1
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 6q13(chr6:73479920-74931870)x1 copy number loss See cases [RCV000051091] Chr6:73479920..74931870 [GRCh38]
Chr6:74189643..75641586 [GRCh37]
Chr6:74246364..75698306 [NCBI36]
Chr6:6q13
uncertain significance
GRCh38/hg38 6q12-14.2(chr6:64549655-83426791)x1 copy number loss See cases [RCV000142527] Chr6:64549655..83426791 [GRCh38]
Chr6:65259548..84136510 [GRCh37]
Chr6:65316269..84193229 [NCBI36]
Chr6:6q12-14.2
pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:181
Count of miRNA genes:177
Interacting mature miRNAs:181
Transcripts:ENST00000428865
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 2 1 3
Low 959 1208 90 22 190 15 1750 580 915 136 640 204 19 327 1110 1
Below cutoff 1174 1246 1100 273 920 123 2235 1255 2499 212 732 1133 150 834 1345 1

Sequence


RefSeq Acc Id: ENST00000428865
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl673,693,903 - 73,696,131 (-)Ensembl
RefSeq Acc Id: NR_110889
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38673,693,903 - 73,696,131 (-)NCBI
T2T-CHM13v2.0674,871,906 - 74,874,121 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC CD109-AS1 COSMIC
Ensembl Genes ENSG00000231652 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000428865 ENTREZGENE
GTEx ENSG00000231652 GTEx
HGNC ID HGNC:55765 ENTREZGENE
Human Proteome Map CD109-AS1 Human Proteome Map
NCBI Gene LOC101928489 ENTREZGENE
RNAcentral URS0000063A17 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-07-26 CD109-AS1  CD109 antisense RNA 1  AL590428.1  novel transcript  Symbol and/or name change 19259463 PROVISIONAL
2020-06-25 AL590428.1  novel transcript  LOC101928489  uncharacterized LOC101928489  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC101928489  uncharacterized LOC101928489  AL590428.1  novel transcript  Symbol and/or name change 5135510 APPROVED