RSL1D1-DT (RSL1D1 divergent transcript) - Rat Genome Database

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Gene: RSL1D1-DT (RSL1D1 divergent transcript) Homo sapiens
Analyze
Symbol: RSL1D1-DT
Name: RSL1D1 divergent transcript
RGD ID: 16563715
HGNC Page HGNC:55337
Description: ASSOCIATED WITH genetic disease; Schizophrenia; schizophrenia
Type: ncrna (Ensembl: lncRNA)
Previously known as: AC007216.4; LOC105371084; novel transcript, antisense to GSPT1; uncharacterized LOC105371084
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
NCBI Annotation Information: Genome Annotation Status: not in current annotation release
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381611,851,609 - 11,904,647 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1611,851,622 - 11,907,054 (+)EnsemblGRCh38hg38GRCh38
Cytogenetic Map16p13.13NCBI
CHM1_11611,945,419 - 11,990,125 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
Schizophrenia  (IAGP)
References

Genomics

Variants

.
Variants in RSL1D1-DT
19 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
NM_002094.4(GSPT1):c.845G>A (p.Arg282His) single nucleotide variant Inborn genetic diseases [RCV003271861] Chr16:11887682 [GRCh38]
Chr16:11981539 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.463C>A (p.Pro155Thr) single nucleotide variant Inborn genetic diseases [RCV003291552] Chr16:11896759 [GRCh38]
Chr16:11990616 [GRCh37]
Chr16:16p13.13		 uncertain significance
GRCh38/hg38 16p13.3-11.2(chr16:4644892-29170820)x3 copy number gain See cases [RCV000133809] Chr16:4644892..29170820 [GRCh38]
Chr16:4694893..29182141 [GRCh37]
Chr16:4634894..29089642 [NCBI36]
Chr16:16p13.3-11.2		 pathogenic
GRCh38/hg38 16p13.3-13.11(chr16:666662-15743104)x3 copy number gain See cases [RCV000143710] Chr16:666662..15743104 [GRCh38]
Chr16:716662..15836961 [GRCh37]
Chr16:656663..15744462 [NCBI36]
Chr16:16p13.3-13.11		 pathogenic
GRCh38/hg38 16p13.3-13.12(chr16:43732-13326806)x3 copy number gain See cases [RCV000139166] Chr16:43732..13326806 [GRCh38]
Chr16:93732..13420663 [GRCh37]
Chr16:33732..13328164 [NCBI36]
Chr16:16p13.3-13.12		 pathogenic
Single allele duplication Schizophrenia [RCV000754168] Chr16:11369400..13577493 [GRCh38]
Chr16:16p13.13-13.12		 likely pathogenic
NM_002094.4(GSPT1):c.583A>G (p.Ile195Val) single nucleotide variant Inborn genetic diseases [RCV002749180] Chr16:11896639 [GRCh38]
Chr16:11990496 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.545A>G (p.Glu182Gly) single nucleotide variant Inborn genetic diseases [RCV002859514] Chr16:11896677 [GRCh38]
Chr16:11990534 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.1107T>A (p.Asn369Lys) single nucleotide variant Inborn genetic diseases [RCV002859513] Chr16:11886782 [GRCh38]
Chr16:11980639 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.517G>C (p.Gly173Arg) single nucleotide variant Inborn genetic diseases [RCV002969613] Chr16:11896705 [GRCh38]
Chr16:11990562 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.1363G>A (p.Val455Ile) single nucleotide variant Inborn genetic diseases [RCV002978393] Chr16:11883080 [GRCh38]
Chr16:11976937 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.523T>A (p.Leu175Met) single nucleotide variant Inborn genetic diseases [RCV002888946] Chr16:11896699 [GRCh38]
Chr16:11990556 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.602T>C (p.Val201Ala) single nucleotide variant Inborn genetic diseases [RCV002826244] Chr16:11896620 [GRCh38]
Chr16:11990477 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.728C>T (p.Thr243Met) single nucleotide variant Inborn genetic diseases [RCV002897279] Chr16:11891110 [GRCh38]
Chr16:11984967 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.1595A>G (p.Asp532Gly) single nucleotide variant Inborn genetic diseases [RCV002940172] Chr16:11877414 [GRCh38]
Chr16:11971271 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.546G>C (p.Glu182Asp) single nucleotide variant Inborn genetic diseases [RCV003010850] Chr16:11896676 [GRCh38]
Chr16:11990533 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.1646A>G (p.Asn549Ser) single nucleotide variant Inborn genetic diseases [RCV002896612] Chr16:11876132 [GRCh38]
Chr16:11969989 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.514G>T (p.Gly172Cys) single nucleotide variant Inborn genetic diseases [RCV003216976] Chr16:11896708 [GRCh38]
Chr16:11990565 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.356C>G (p.Pro119Arg) single nucleotide variant Inborn genetic diseases [RCV003208781] Chr16:11898032 [GRCh38]
Chr16:11991889 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.1765C>G (p.Gln589Glu) single nucleotide variant Inborn genetic diseases [RCV003383046] Chr16:11875857 [GRCh38]
Chr16:11969714 [GRCh37]
Chr16:16p13.13		 uncertain significance
NM_002094.4(GSPT1):c.400A>G (p.Asn134Asp) single nucleotide variant Inborn genetic diseases [RCV003346867] Chr16:11897876 [GRCh38]
Chr16:11991733 [GRCh37]
Chr16:16p13.13		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:219
Count of miRNA genes:186
Interacting mature miRNAs:191
Transcripts:ENST00000574364
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 adipose tissue appendage entire extraembryonic component
High
Medium 30 1 1 8
Low 1533 1431 1072 269 1044 141 3452 967 1468 207 1253 1433 138 949 2173 4
Below cutoff 866 1321 581 298 650 267 835 1127 1847 179 164 164 32 247 587

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000574364
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1611,851,622 - 11,907,054 (+)Ensembl
RefSeq Acc Id: XR_001752085
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381611,851,609 - 11,904,647 (+)NCBI
Sequence:
RefSeq Acc Id: XR_933077
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381611,851,610 - 11,897,178 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC RSL1D1-DT COSMIC
Ensembl Genes ENSG00000263307 Ensembl
GTEx ENSG00000263307 GTEx
HGNC ID HGNC:55337 ENTREZGENE
Human Proteome Map RSL1D1-DT Human Proteome Map
NCBI Gene LOC105371084 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-10-26 RSL1D1-DT  RSL1D1 divergent transcript  AC007216.4  novel transcript, antisense to GSPT1  Symbol and/or name change 19259463 PROVISIONAL
2020-06-25 AC007216.4  novel transcript, antisense to GSPT1  LOC105371084  uncharacterized LOC105371084  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC105371084  uncharacterized LOC105371084  AC007216.4  novel transcript, antisense to GSPT1  Symbol and/or name change 5135510 APPROVED