LEMD1-DT (LEMD1 divergent transcript) - Rat Genome Database

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Gene: LEMD1-DT (LEMD1 divergent transcript) Homo sapiens
Analyze
Symbol: LEMD1-DT
Name: LEMD1 divergent transcript
RGD ID: 14401762
HGNC Page HGNC:27631
Description: ASSOCIATED WITH Autism; autistic disorder
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
GRCh381205,456,058 - 205,469,024 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1205,455,929 - 205,469,024 (+)EnsemblGRCh38hg38GRCh38
GRCh371205,425,186 - 205,438,152 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map1q32.1NCBI
HuRef1176,590,583 - 176,603,583 (+)NCBIHuRef
CHM1_11206,848,459 - 206,861,440 (+)NCBICHM1_1
T2T-CHM13v2.01204,720,399 - 204,733,369 (+)NCBIT2T-CHM13v2.0
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
Autism  (IAGP)
References
Additional References at PubMed
PMID:14702039  


Genomics

Variants

.
Variants in LEMD1-DT
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
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 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 1q32.1-32.2(chr1:204990129-210220258)x3 copy number gain See cases [RCV000051859] Chr1:204990129..210220258 [GRCh38]
Chr1:204959257..210572305 [GRCh37]
Chr1:203225880..208638928 [NCBI36]
Chr1:1q32.1-32.2		 pathogenic
NC_000001.11:g.(?_204033173)_(208209798_?)del deletion Autism [RCV000754138] Chr1:204033173..208209798 [GRCh38]
Chr1:1q32.1-32.2		 likely pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:159
Count of miRNA genes:152
Interacting mature miRNAs:158
Transcripts:ENST00000442318
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 3 4
Low 15 14 55 187 9 556 21 216 64 1 1
Below cutoff 1247 788 978 197 767 80 1191 788 2216 144 841 904 128 235 826 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000442318
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1205,455,929 - 205,469,024 (+)Ensembl
RefSeq Acc Id: NR_148934
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381205,456,058 - 205,469,024 (+)NCBI
T2T-CHM13v2.01204,720,399 - 204,733,369 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LEMD1-DT COSMIC
Ensembl Genes ENSG00000224717 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000442318 ENTREZGENE
GTEx ENSG00000224717 GTEx
HGNC ID HGNC:27631 ENTREZGENE
Human Proteome Map LEMD1-DT Human Proteome Map
NCBI Gene LEMD1-DT ENTREZGENE
RNAcentral URS00008BDA32 RNACentral