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

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Gene: NNT-AS1 (NNT antisense RNA 1) Homo sapiens
Analyze
Symbol: NNT-AS1
Name: NNT antisense RNA 1
RGD ID: 7248461
HGNC Page HGNC:49005
Description: INTERACTS WITH avobenzone; dorsomorphin; methylmercury chloride
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: RP11-159F24.1
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38543,573,185 - 43,603,230 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl543,571,594 - 43,603,230 (-)EnsemblGRCh38hg38GRCh38
GRCh37543,573,287 - 43,603,332 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map5p12NCBI
HuRef543,525,933 - 43,555,952 (-)NCBIHuRef
CHM1_1543,574,513 - 43,604,751 (-)NCBICHM1_1
T2T-CHM13v2.0543,826,836 - 43,856,862 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14702039   PMID:16344560   PMID:27966450   PMID:28628975   PMID:29179477   PMID:29518771   PMID:29710510   PMID:29857296   PMID:30006956   PMID:30324628   PMID:30489194   PMID:31923353  
PMID:32019904   PMID:32420808   PMID:32468065   PMID:32514270   PMID:32691576   PMID:32768929   PMID:32928135   PMID:33426064   PMID:33479472   PMID:34048709   PMID:34132374   PMID:34643163  
PMID:34742256   PMID:36327824   PMID:38521881  


Genomics

Variants

.
Variants in NNT-AS1
7 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 5p15.33-11(chr5:49978-46114984)x3 copy number gain See cases [RCV000135453] Chr5:49978..46114984 [GRCh38]
Chr5:50093..46115086 [GRCh37]
Chr5:103093..46150843 [NCBI36]
Chr5:5p15.33-11		 pathogenic
GRCh38/hg38 5p13.2-q12.1(chr5:35201559-61903141)x3 copy number gain See cases [RCV000137302] Chr5:35201559..61903141 [GRCh38]
Chr5:35201661..61198968 [GRCh37]
Chr5:35237418..61234725 [NCBI36]
Chr5:5p13.2-q12.1		 pathogenic
GRCh38/hg38 5p15.33-q13.3(chr5:22149-74412725)x3 copy number gain See cases [RCV000138780] Chr5:22149..74412725 [GRCh38]
Chr5:22149..73708550 [GRCh37]
Chr5:75149..73744306 [NCBI36]
Chr5:5p15.33-q13.3		 pathogenic
GRCh38/hg38 5p15.33-12(chr5:54839-45649861)x3 copy number gain See cases [RCV000051810] Chr5:54839..45649861 [GRCh38]
Chr5:54954..45649963 [GRCh37]
Chr5:107954..45685720 [NCBI36]
Chr5:5p15.33-12		 pathogenic
GRCh38/hg38 5p14.1-q11.1(chr5:26593632-50288555)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051834]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051834]|See cases [RCV000051834] Chr5:26593632..50288555 [GRCh38]
Chr5:26593741..49584389 [GRCh37]
Chr5:26629498..49620146 [NCBI36]
Chr5:5p14.1-q11.1		 pathogenic
GRCh38/hg38 5p13.2-12(chr5:35700480-45260029)x3 copy number gain See cases [RCV000051835] Chr5:35700480..45260029 [GRCh38]
Chr5:35700582..45260131 [GRCh37]
Chr5:35736339..45295888 [NCBI36]
Chr5:5p13.2-12		 pathogenic
GRCh38/hg38 5p13.2-q11.1(chr5:36374107-51103841)x3 copy number gain See cases [RCV000051836] Chr5:36374107..51103841 [GRCh38]
Chr5:36374209..50399675 [GRCh37]
Chr5:36409966..50435432 [NCBI36]
Chr5:5p13.2-q11.1		 pathogenic
GRCh38/hg38 5p13.3-12(chr5:29299893-45899898)x3 copy number gain See cases [RCV003482191] Chr5:29299893..45899898 [GRCh38]
Chr5:5p13.3-12		 likely pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1260
Count of miRNA genes:691
Interacting mature miRNAs:805
Transcripts:ENST00000500258, ENST00000503484, ENST00000506247, ENST00000513560, ENST00000515466, ENST00000606697
Prediction methods:Microtar, 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 visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 101 365 288 27 543 30 428 402 595 140 234 336 10 2 341 2
Low 2338 2157 1437 597 943 435 3928 1791 3139 279 1226 1276 165 1 1202 2447 4 2
Below cutoff 469 1 465 1 4 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000500258
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl543,579,130 - 43,603,063 (-)Ensembl
RefSeq Acc Id: ENST00000503484
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl543,578,269 - 43,602,965 (-)Ensembl
RefSeq Acc Id: ENST00000506247
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl543,588,641 - 43,603,230 (-)Ensembl
RefSeq Acc Id: ENST00000513560
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl543,571,594 - 43,603,138 (-)Ensembl
RefSeq Acc Id: ENST00000515466
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl543,575,778 - 43,603,176 (-)Ensembl
RefSeq Acc Id: ENST00000606697
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl543,577,642 - 43,603,063 (-)Ensembl
RefSeq Acc Id: ENST00000656020
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl543,575,564 - 43,603,106 (-)Ensembl
RefSeq Acc Id: ENST00000668986
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl543,588,234 - 43,603,096 (-)Ensembl
RefSeq Acc Id: NR_073113
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38543,573,185 - 43,603,230 (-)NCBI
GRCh37543,573,287 - 43,603,332 (-)NCBI
HuRef543,525,933 - 43,555,952 (-)NCBI
CHM1_1543,574,513 - 43,604,751 (-)NCBI
T2T-CHM13v2.0543,826,836 - 43,856,862 (-)NCBI
Sequence:
Promoters
RGD ID:15095884
Promoter ID:EPDNEWNC_H720
Type:initiation region
Name:NNT-AS1_2
Description:NNT antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:49005]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38543,602,888 - 43,602,948EPDNEWNC
RGD ID:15095877
Promoter ID:EPDNEWNC_H721
Type:initiation region
Name:NNT-AS1_1
Description:NNT antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:49005]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38543,603,104 - 43,603,164EPDNEWNC

Additional Information

Database Acc Id Source(s)
COSMIC NNT-AS1 COSMIC
Ensembl Genes ENSG00000248092 Ensembl
GTEx ENSG00000248092 GTEx
HGNC ID HGNC:49005 ENTREZGENE
Human Proteome Map NNT-AS1 Human Proteome Map
NCBI Gene NNT-AS1 ENTREZGENE
RNAcentral URS000075C8F1 RNACentral