SERTAD4-AS1 (SERTAD4 antisense RNA 1) - Rat Genome Database

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Gene: SERTAD4-AS1 (SERTAD4 antisense RNA 1) Homo sapiens
Analyze
Symbol: SERTAD4-AS1
Name: SERTAD4 antisense RNA 1
RGD ID: 1602254
HGNC Page HGNC:32019
Description: INTERACTS WITH 17beta-estradiol; aflatoxin B1; all-trans-retinoic acid
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: C1orf133
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381210,231,456 - 210,233,885 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1210,231,456 - 210,234,047 (-)EnsemblGRCh38hg38GRCh38
GRCh371210,404,801 - 210,407,230 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361208,471,424 - 208,474,125 (-)NCBINCBI36Build 36hg18NCBI36
Celera1183,628,187 - 183,630,849 (-)NCBICelera
Cytogenetic Map1q32.2NCBI
HuRef1181,078,822 - 181,081,167 (-)NCBIHuRef
CHM1_11211,677,131 - 211,679,794 (-)NCBICHM1_1
T2T-CHM13v2.01209,470,139 - 209,472,569 (-)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:12477932   PMID:19240061   PMID:27609421  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 1q32.2-44(chr1:209963625-248918469)x3 copy number gain See cases [RCV000134979] Chr1:209963625..248918469 [GRCh38]
Chr1:210136970..249212668 [GRCh37]
Chr1:208203593..247179291 [NCBI36]
Chr1:1q32.2-44		 pathogenic
GRCh38/hg38 1q32.2-32.3(chr1:208063461-211907812)x1 copy number loss See cases [RCV000138122] Chr1:208063461..211907812 [GRCh38]
Chr1:208236806..212081154 [GRCh37]
Chr1:206303429..210147777 [NCBI36]
Chr1:1q32.2-32.3		 likely benign
GRCh38/hg38 1q32.1-42.12(chr1:204764914-225408698)x3 copy number gain See cases [RCV000142054] Chr1:204764914..225408698 [GRCh38]
Chr1:204734042..225596400 [GRCh37]
Chr1:203000665..223663023 [NCBI36]
Chr1:1q32.1-42.12		 pathogenic
GRCh38/hg38 1q32.2-44(chr1:207346642-248930485)x3 copy number gain See cases [RCV000143727] Chr1:207346642..248930485 [GRCh38]
Chr1:207519987..249224684 [GRCh37]
Chr1:205586610..247191307 [NCBI36]
Chr1:1q32.2-44		 pathogenic
GRCh38/hg38 1q31.1-42.11(chr1:187143981-224299417)x3 copy number gain See cases [RCV000051857] Chr1:187143981..224299417 [GRCh38]
Chr1:187113113..224487119 [GRCh37]
Chr1:185379736..222553742 [NCBI36]
Chr1:1q31.1-42.11		 pathogenic
GRCh38/hg38 1q32.2-42.13(chr1:228006998-228061271)x2 copy number loss Orofacial cleft 2 [RCV002481175] Chr1:228006998..228061271 [GRCh38]
Chr1:1q32.2-42.13		 association
GRCh38/hg38 1q32.2-44(chr1:209646207-248931113)x3 copy number gain See cases [RCV000051861] Chr1:209646207..248931113 [GRCh38]
Chr1:209819552..249225312 [GRCh37]
Chr1:207886175..247191935 [NCBI36]
Chr1:1q32.2-44		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:222
Count of miRNA genes:80
Interacting mature miRNAs:85
Transcripts:ENST00000437764, ENST00000475406, ENST00000480052
Prediction methods:Miranda, Rnahybrid, Targetscan
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.

Markers in Region
RH102282  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371210,404,881 - 210,405,047UniSTSGRCh37
Build 361208,471,504 - 208,471,670RGDNCBI36
Celera1183,628,264 - 183,628,430RGD
Cytogenetic Map1q32.1-q41UniSTS
Cytogenetic Map1q32.2UniSTS
HuRef1181,078,899 - 181,079,065UniSTS
GeneMap99-GB4 RH Map1689.26UniSTS


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 1161 1131 313 74 47 9 830 468 613 141 505 439 68 352 620
Low 1196 1059 874 181 272 88 3245 1414 3087 271 927 1151 102 852 1916 4
Below cutoff 46 257 399 244 458 244 272 289 7 6 8 10 248

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000437764
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1210,231,456 - 210,234,044 (-)Ensembl
RefSeq Acc Id: ENST00000475406
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1210,231,456 - 210,232,972 (-)Ensembl
RefSeq Acc Id: ENST00000480052
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1210,231,456 - 210,234,047 (-)Ensembl
RefSeq Acc Id: ENST00000703020
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1210,231,456 - 210,233,868 (-)Ensembl
RefSeq Acc Id: NR_024337
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381210,231,456 - 210,233,885 (-)NCBI
GRCh371210,404,804 - 210,407,466 (-)RGD
Celera1183,628,187 - 183,630,849 (-)RGD
HuRef1181,078,822 - 181,081,167 (-)ENTREZGENE
CHM1_11211,677,131 - 211,679,794 (-)NCBI
T2T-CHM13v2.01209,470,139 - 209,472,569 (-)NCBI
Sequence:
Protein Sequences
GenBank Protein Q5TG53 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5TG53-F1-model_v2 AlphaFold Q5TG53 1-156 view protein structure

Promoters
RGD ID:15095338
Promoter ID:EPDNEWNC_H174
Type:initiation region
Name:SERTAD4-AS1_2
Description:SERTAD4 antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:32019]
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
GRCh381210,233,013 - 210,233,073EPDNEWNC
RGD ID:15095341
Promoter ID:EPDNEWNC_H175
Type:initiation region
Name:SERTAD4-AS1_1
Description:SERTAD4 antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:32019]
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
GRCh381210,234,093 - 210,234,153EPDNEWNC

Additional Information

Database Acc Id Source(s)
COSMIC SERTAD4-AS1 COSMIC
Ensembl Genes ENSG00000203706 Ensembl
GTEx ENSG00000203706 GTEx
HGNC ID HGNC:32019 ENTREZGENE
Human Proteome Map SERTAD4-AS1 Human Proteome Map
NCBI Gene 574036 ENTREZGENE
PharmGKB PA142672451 PharmGKB
RNAcentral URS0000D77F5A RNACentral
UniProt Q5TG53 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-21 SERTAD4-AS1  SERTAD4 antisense RNA 1  SERTAD4-AS1  SERTAD4 antisense RNA 1 (non-protein coding)  Symbol and/or name change 5135510 APPROVED
2012-07-17 SERTAD4-AS1  SERTAD4 antisense RNA 1 (non-protein coding)  C1orf133  chromosome 1 open reading frame 133  Symbol and/or name change 5135510 APPROVED