STIM2-AS1 (STIM2 antisense RNA 1) - Rat Genome Database

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Gene: STIM2-AS1 (STIM2 antisense RNA 1) Homo sapiens
Analyze
Symbol: STIM2-AS1
Name: STIM2 antisense RNA 1
RGD ID: 13825087
HGNC Page HGNC:40879
Description:
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
GRCh38426,859,624 - 26,860,599 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl426,859,806 - 26,860,650 (-)EnsemblGRCh38hg38GRCh38
GRCh37426,861,246 - 26,862,221 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map4p15.2NCBI
CHM1_1426,862,757 - 26,863,732 (-)NCBICHM1_1
T2T-CHM13v2.0426,844,736 - 26,845,711 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 4p16.3-15.1(chr4:72555-28066309)x1 copy number loss See cases [RCV000051642] Chr4:72555..28066309 [GRCh38]
Chr4:72447..28067931 [GRCh37]
Chr4:62447..27677029 [NCBI36]
Chr4:4p16.3-15.1		 pathogenic
GRCh38/hg38 4p15.2(chr4:23862000-27685546)x1 copy number loss See cases [RCV000135404] Chr4:23862000..27685546 [GRCh38]
Chr4:23863623..27687168 [GRCh37]
Chr4:23472721..27296266 [NCBI36]
Chr4:4p15.2		 pathogenic
GRCh38/hg38 4p16.3-14(chr4:72555-39477144)x3 copy number gain See cases [RCV000133677] Chr4:72555..39477144 [GRCh38]
Chr4:72447..39478764 [GRCh37]
Chr4:62447..39155159 [NCBI36]
Chr4:4p16.3-14		 pathogenic
GRCh38/hg38 4p15.32-15.1(chr4:16925022-32113076)x1 copy number loss See cases [RCV000135806] Chr4:16925022..32113076 [GRCh38]
Chr4:16926645..32114698 [GRCh37]
Chr4:16535743..31758596 [NCBI36]
Chr4:4p15.32-15.1		 pathogenic|likely pathogenic
GRCh38/hg38 4p16.3-14(chr4:85149-38700366)x3 copy number gain See cases [RCV000051757] Chr4:85149..38700366 [GRCh38]
Chr4:85040..38701987 [GRCh37]
Chr4:75040..38378382 [NCBI36]
Chr4:4p16.3-14		 pathogenic
GRCh38/hg38 4p16.3-15.1(chr4:72555-33130620)x3 copy number gain See cases [RCV000051753] Chr4:72555..33130620 [GRCh38]
Chr4:72447..33132242 [GRCh37]
Chr4:62447..32808637 [NCBI36]
Chr4:4p16.3-15.1		 pathogenic
GRCh38/hg38 4p16.3-12(chr4:36424-47491595)x3 copy number gain See cases [RCV000137261] Chr4:36424..47491595 [GRCh38]
Chr4:36424..47493612 [GRCh37]
Chr4:26424..47188369 [NCBI36]
Chr4:4p16.3-12		 pathogenic
GRCh38/hg38 4p15.33-14(chr4:11399082-38137335) copy number loss 4p partial monosomy syndrome [RCV003155905] Chr4:11399082..38137335 [GRCh38]
Chr4:4p15.33-14		 pathogenic
GRCh38/hg38 4p16.3-13(chr4:2904667-42963232)x3 copy number gain Neurodevelopmental disorder [RCV003327612] Chr4:2904667..42963232 [GRCh38]
Chr4:4p16.3-13		 pathogenic
GRCh38/hg38 4p16.3-11(chr4:1-49062177)x3 copy number gain Neurodevelopmental disorder [RCV003327611] Chr4:1..49062177 [GRCh38]
Chr4:4p16.3-11		 pathogenic
GRCh38/hg38 4p16.3-q12(chr4:85624-57073230)x3 copy number gain Neurodevelopmental disorder [RCV003327613] Chr4:85624..57073230 [GRCh38]
Chr4:4p16.3-q12		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:760
Count of miRNA genes:239
Interacting mature miRNAs:255
Transcripts:ENST00000467484, ENST00000472346, ENST00000489096
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.


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 1 13 366 3
Low 951 938 1314 407 1114 286 2430 627 2682 297 673 1106 127 737 1287 2 1
Below cutoff 1173 1604 361 185 583 154 1503 1242 932 105 318 427 40 1 403 1138 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000467484
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl426,859,806 - 26,860,599 (-)Ensembl
RefSeq Acc Id: ENST00000472346
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl426,859,809 - 26,860,244 (-)Ensembl
RefSeq Acc Id: ENST00000489096
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl426,859,806 - 26,860,581 (-)Ensembl
RefSeq Acc Id: ENST00000663047
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl426,859,806 - 26,860,631 (-)Ensembl
RefSeq Acc Id: ENST00000667363
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl426,859,806 - 26,860,650 (-)Ensembl
RefSeq Acc Id: NR_134673
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38426,859,624 - 26,860,599 (-)NCBI
T2T-CHM13v2.0426,844,736 - 26,845,711 (-)NCBI
Sequence:
RefSeq Acc Id: NR_134674
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38426,859,624 - 26,860,599 (-)NCBI
T2T-CHM13v2.0426,844,736 - 26,845,711 (-)NCBI
Sequence:
RefSeq Acc Id: NR_134675
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38426,859,624 - 26,860,244 (-)NCBI
T2T-CHM13v2.0426,844,736 - 26,845,356 (-)NCBI
Sequence:
Promoters
RGD ID:15095752
Promoter ID:EPDNEWNC_H593
Type:initiation region
Name:STIM2-AS1_1
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
GRCh38426,860,626 - 26,860,686EPDNEWNC

Additional Information

Database Acc Id Source(s)
COSMIC STIM2-AS1 COSMIC
Ensembl Genes ENSG00000240005 Ensembl
GTEx ENSG00000240005 GTEx
HGNC ID HGNC:40879 ENTREZGENE
Human Proteome Map STIM2-AS1 Human Proteome Map
NCBI Gene STIM2-AS1 ENTREZGENE
RNAcentral URS0000A767F7 RNACentral
  URS0000A76975 RNACentral
  URS0000A777FE RNACentral