DACT3-AS1 (DACT3 antisense RNA 1) - Rat Genome Database

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Gene: DACT3-AS1 (DACT3 antisense RNA 1) Homo sapiens
Analyze
Symbol: DACT3-AS1
Name: DACT3 antisense RNA 1
RGD ID: 6766448
HGNC Page HGNC:44120
Description: INTERACTS WITH acrylamide; aristolochic acid A; dorsomorphin
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381946,660,364 - 46,677,456 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1946,660,364 - 46,678,991 (+)EnsemblGRCh38hg38GRCh38
GRCh371947,163,621 - 47,180,713 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera1943,968,261 - 43,978,128 (+)NCBICelera
Cytogenetic Map19q13.32NCBI
HuRef1943,588,750 - 43,605,837 (+)NCBIHuRef
CHM1_11947,165,479 - 47,182,589 (+)NCBICHM1_1
T2T-CHM13v2.01949,485,900 - 49,502,996 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:12477932   PMID:35764883  


Genomics

Variants

.
Variants in DACT3-AS1
7 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 19q13.32-13.33(chr19:44971420-48257402)x3 copy number gain See cases [RCV000136578] Chr19:44971420..48257402 [GRCh38]
Chr19:45474677..48760659 [GRCh37]
Chr19:50166517..53452471 [NCBI36]
Chr19:19q13.32-13.33		 pathogenic
GRCh38/hg38 19q13.32(chr19:45387389-46831000)x1 copy number loss See cases [RCV000137832] Chr19:45387389..46831000 [GRCh38]
Chr19:45890647..47334257 [GRCh37]
Chr19:50582487..52026097 [NCBI36]
Chr19:19q13.32		 likely pathogenic
GRCh38/hg38 19q13.32(chr19:46434490-46831000)x3 copy number gain See cases [RCV000148268] Chr19:46434490..46831000 [GRCh38]
Chr19:46937747..47334257 [GRCh37]
Chr19:51629587..52026097 [NCBI36]
Chr19:19q13.32		 uncertain significance
GRCh38/hg38 19q13.32(chr19:46434490-46831000)x3 copy number gain See cases [RCV000050320] Chr19:46434490..46831000 [GRCh38]
Chr19:46937747..47334257 [GRCh37]
Chr19:51629587..52026097 [NCBI36]
Chr19:19q13.32		 uncertain significance
GRCh38/hg38 19q13.32-13.33(chr19:46658791-49050450)x3 copy number gain See cases [RCV000052913] Chr19:46658791..49050450 [GRCh38]
Chr19:47162048..49553707 [GRCh37]
Chr19:51853888..54245519 [NCBI36]
Chr19:19q13.32-13.33		 pathogenic
GRCh38/hg38 19q13.32-13.33(chr19:46458122-47683579)x1 copy number loss See cases [RCV000053976] Chr19:46458122..47683579 [GRCh38]
Chr19:46961379..48186836 [GRCh37]
Chr19:51653219..52878648 [NCBI36]
Chr19:19q13.32-13.33		 pathogenic
NM_145056.3(DACT3):c.236T>G (p.Leu79Arg) single nucleotide variant not specified [RCV004300910] Chr19:46660829 [GRCh38]
Chr19:47164086 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_016457.5(PRKD2):c.2494A>G (p.Ser832Gly) single nucleotide variant not specified [RCV004137054] Chr19:46674666 [GRCh38]
Chr19:47177923 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_145056.3(DACT3):c.92A>G (p.His31Arg) single nucleotide variant not specified [RCV004104036] Chr19:46660973 [GRCh38]
Chr19:47164230 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_016457.5(PRKD2):c.2620C>T (p.Arg874Cys) single nucleotide variant not specified [RCV004149093] Chr19:46674540 [GRCh38]
Chr19:47177797 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_016457.5(PRKD2):c.2354A>G (p.Asn785Ser) single nucleotide variant not specified [RCV004232719] Chr19:46675103 [GRCh38]
Chr19:47178360 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_016457.5(PRKD2):c.2342T>C (p.Ile781Thr) single nucleotide variant not specified [RCV004087581] Chr19:46675115 [GRCh38]
Chr19:47178372 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_016457.5(PRKD2):c.2361G>A (p.Leu787=) single nucleotide variant not provided [RCV003407040] Chr19:46675096 [GRCh38]
Chr19:47178353 [GRCh37]
Chr19:19q13.32		 likely benign
NM_145056.3(DACT3):c.11C>G (p.Ala4Gly) single nucleotide variant not specified [RCV004370823] Chr19:46661054 [GRCh38]
Chr19:47164311 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_016457.5(PRKD2):c.2621G>A (p.Arg874His) single nucleotide variant not specified [RCV004515206] Chr19:46674539 [GRCh38]
Chr19:47177796 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_016457.5(PRKD2):c.2584C>T (p.Pro862Ser) single nucleotide variant not specified [RCV004515205] Chr19:46674576 [GRCh38]
Chr19:47177833 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_145056.3(DACT3):c.155T>C (p.Met52Thr) single nucleotide variant not specified [RCV004370825] Chr19:46660910 [GRCh38]
Chr19:47164167 [GRCh37]
Chr19:19q13.32		 uncertain significance
NM_016457.5(PRKD2):c.2488C>T (p.His830Tyr) single nucleotide variant not specified [RCV004515204] Chr19:46674672 [GRCh38]
Chr19:47177929 [GRCh37]
Chr19:19q13.32		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:721
Count of miRNA genes:554
Interacting mature miRNAs:619
Transcripts:ENST00000500689, ENST00000525008, ENST00000525352
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 1 173
Low 610 1294 59 10 255 10 734 242 970 53 593 201 1 54 671
Below cutoff 1729 1553 1516 509 1359 358 3103 1527 2704 291 620 1303 160 1103 1729 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000500689
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1946,661,478 - 46,671,341 (+)Ensembl
RefSeq Acc Id: ENST00000525008
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1946,660,364 - 46,677,447 (+)Ensembl
RefSeq Acc Id: ENST00000525352
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1946,661,985 - 46,673,636 (+)Ensembl
RefSeq Acc Id: ENST00000690000
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1946,661,562 - 46,678,991 (+)Ensembl
RefSeq Acc Id: ENST00000692220
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1946,661,611 - 46,662,592 (+)Ensembl
RefSeq Acc Id: NR_040041
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381946,661,478 - 46,671,341 (+)NCBI
GRCh371947,163,621 - 47,180,713 (+)NCBI
HuRef1943,588,750 - 43,605,837 (+)NCBI
CHM1_11947,166,593 - 47,176,460 (+)NCBI
T2T-CHM13v2.01949,487,014 - 49,496,880 (+)NCBI
Sequence:
RefSeq Acc Id: NR_040042
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381946,660,364 - 46,677,456 (+)NCBI
GRCh371947,163,621 - 47,180,713 (+)NCBI
HuRef1943,588,750 - 43,605,837 (+)NCBI
CHM1_11947,165,479 - 47,182,589 (+)NCBI
T2T-CHM13v2.01949,485,900 - 49,502,996 (+)NCBI
Sequence:
Promoters
RGD ID:15097223
Promoter ID:EPDNEWNC_H2065
Type:multiple initiation site
Name:DACT3-AS1_1
Description:DACT3 antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:44120]
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
GRCh381946,660,324 - 46,660,384EPDNEWNC

Additional Information

Database Acc Id Source(s)
COSMIC DACT3-AS1 COSMIC
Ensembl Genes ENSG00000245598 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000500689 ENTREZGENE
  ENST00000525008 ENTREZGENE
GTEx ENSG00000245598 GTEx
HGNC ID HGNC:44120 ENTREZGENE
Human Proteome Map DACT3-AS1 Human Proteome Map
NCBI Gene DACT3-AS1 ENTREZGENE
RNAcentral URS000075C334 RNACentral
  URS000075C762 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-21 DACT3-AS1  DACT3 antisense RNA 1  DACT3-AS1  DACT3 antisense RNA 1 (non-protein coding)  Symbol and/or name change 5135510 APPROVED