LAMTOR5-AS1 (LAMTOR5 and SLC16A4 antisense RNA 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: LAMTOR5-AS1 (LAMTOR5 and SLC16A4 antisense RNA 1) Homo sapiens
Analyze
Symbol: LAMTOR5-AS1
Name: LAMTOR5 and SLC16A4 antisense RNA 1
RGD ID: 7243078
HGNC Page HGNC:40823
Description: ASSOCIATED WITH Autism; autistic disorder; INTERACTS WITH rotenone
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: LAMTOR5 antisense RNA 1; RP11-225L12.2
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381110,407,809 - 110,416,274 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1110,347,116 - 110,443,817 (+)EnsemblGRCh38hg38GRCh38
GRCh371110,950,431 - 110,958,896 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map1p13.3NCBI
HuRef1108,822,114 - 108,830,580 (+)NCBIHuRef
CHM1_11111,065,739 - 111,074,221 (+)NCBICHM1_1
T2T-CHM13v2.01110,422,954 - 110,431,420 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
rotenone  (EXP)

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
Autism  (IAGP)
References
Additional References at PubMed
PMID:34374893   PMID:34588094   PMID:36173004  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 1p21.1-12(chr1:104325484-119977655)x3 copy number gain See cases [RCV000142953] Chr1:104325484..119977655 [GRCh38]
Chr1:104868106..120471049 [GRCh37]
Chr1:104669629..120321801 [NCBI36]
Chr1:1p21.1-12		 pathogenic
GRCh38/hg38 1p21.1-13.2(chr1:105468292-112190626)x1 copy number loss See cases [RCV000142760] Chr1:105468292..112190626 [GRCh38]
Chr1:106010914..112733248 [GRCh37]
Chr1:105812437..112534771 [NCBI36]
Chr1:1p21.1-13.2		 pathogenic
GRCh38/hg38 1p13.3-12(chr1:109756630-118650204)x3 copy number gain See cases [RCV000051827] Chr1:109756630..118650204 [GRCh38]
Chr1:110299252..119192827 [GRCh37]
Chr1:110100775..118994350 [NCBI36]
Chr1:1p13.3-12		 pathogenic
GRCh38/hg38 1p21.3-13.3(chr1:97410602-110670510)x1 copy number loss See cases [RCV000053877] Chr1:97410602..110670510 [GRCh38]
Chr1:97876158..111213132 [GRCh37]
Chr1:97648746..111014655 [NCBI36]
Chr1:1p21.3-13.3		 pathogenic
GRCh38/hg38 1p21.2-13.2(chr1:101618097-111703028)x1 copy number loss See cases [RCV000053879] Chr1:101618097..111703028 [GRCh38]
Chr1:102083653..112245650 [GRCh37]
Chr1:101856241..112047173 [NCBI36]
Chr1:1p21.2-13.2		 pathogenic
NC_000001.11:g.(?_103175204)_(111410059_?)del deletion Autism [RCV000754122] Chr1:103175204..111410059 [GRCh38]
Chr1:1p21.1-13.2		 likely pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:3906
Count of miRNA genes:954
Interacting mature miRNAs:1103
Transcripts:ENST00000444238, ENST00000457535, ENST00000585330, ENST00000585433, ENST00000587691, ENST00000590413, ENST00000590826, ENST00000596890, ENST00000597455, ENST00000598158, ENST00000598350, ENST00000598454, ENST00000599202, ENST00000608067, ENST00000608077, ENST00000608111, ENST00000608152, ENST00000608253, ENST00000608486, ENST00000608499, ENST00000608602, ENST00000608635, ENST00000608719, ENST00000609244, ENST00000609245, ENST00000609512, ENST00000609653, ENST00000609709, ENST00000610148
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 visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 1 2 1
Low 231 409 609 167 819 164 1548 309 1315 168 869 718 18 1 162 1103 5 1
Below cutoff 2207 2580 1117 456 1130 301 2808 1887 2418 250 586 894 157 1042 1685

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000444238
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,412,993 - 110,422,024 (+)Ensembl
RefSeq Acc Id: ENST00000457535
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,525 - 110,416,278 (+)Ensembl
RefSeq Acc Id: ENST00000585330
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,776 - 110,426,774 (+)Ensembl
RefSeq Acc Id: ENST00000585433
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,127 - 110,432,360 (+)Ensembl
RefSeq Acc Id: ENST00000587691
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,840 - 110,412,498 (+)Ensembl
RefSeq Acc Id: ENST00000590413
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,382,819 - 110,418,362 (+)Ensembl
RefSeq Acc Id: ENST00000590826
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,408,970 - 110,416,272 (+)Ensembl
RefSeq Acc Id: ENST00000596890
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,063 - 110,431,706 (+)Ensembl
RefSeq Acc Id: ENST00000597455
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,425,971 - 110,426,775 (+)Ensembl
RefSeq Acc Id: ENST00000598158
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,063 - 110,425,999 (+)Ensembl
RefSeq Acc Id: ENST00000598350
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,417,489 - 110,426,085 (+)Ensembl
RefSeq Acc Id: ENST00000598454
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,825 - 110,418,362 (+)Ensembl
RefSeq Acc Id: ENST00000599202
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,063 - 110,425,785 (+)Ensembl
RefSeq Acc Id: ENST00000608067
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,784 - 110,413,523 (+)Ensembl
RefSeq Acc Id: ENST00000608077
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,413,849 - 110,418,303 (+)Ensembl
RefSeq Acc Id: ENST00000608111
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,412,935 - 110,418,274 (+)Ensembl
RefSeq Acc Id: ENST00000608152
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,412,956 - 110,416,186 (+)Ensembl
RefSeq Acc Id: ENST00000608253
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,833 - 110,432,341 (+)Ensembl
RefSeq Acc Id: ENST00000608486
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,820 - 110,418,313 (+)Ensembl
RefSeq Acc Id: ENST00000608499
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,850 - 110,418,314 (+)Ensembl
RefSeq Acc Id: ENST00000608602
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,408,653 - 110,418,312 (+)Ensembl
RefSeq Acc Id: ENST00000608635
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,413,031 - 110,418,311 (+)Ensembl
RefSeq Acc Id: ENST00000608719
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,412,970 - 110,418,313 (+)Ensembl
RefSeq Acc Id: ENST00000609244
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,809 - 110,432,308 (+)Ensembl
RefSeq Acc Id: ENST00000609245
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,412,942 - 110,418,293 (+)Ensembl
RefSeq Acc Id: ENST00000609512
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,805 - 110,416,274 (+)Ensembl
RefSeq Acc Id: ENST00000609653
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,412,015 - 110,416,186 (+)Ensembl
RefSeq Acc Id: ENST00000609709
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,828 - 110,418,314 (+)Ensembl
RefSeq Acc Id: ENST00000610148
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,829 - 110,418,307 (+)Ensembl
RefSeq Acc Id: ENST00000612551
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,408,136 - 110,418,314 (+)Ensembl
RefSeq Acc Id: ENST00000616223
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,063 - 110,423,526 (+)Ensembl
RefSeq Acc Id: ENST00000622324
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,848 - 110,418,314 (+)Ensembl
RefSeq Acc Id: ENST00000625451
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,628 - 110,416,089 (+)Ensembl
RefSeq Acc Id: ENST00000625584
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,442,764 - 110,443,817 (+)Ensembl
RefSeq Acc Id: ENST00000625992
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,091 - 110,437,745 (+)Ensembl
RefSeq Acc Id: ENST00000626261
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,418,277 - 110,430,482 (+)Ensembl
RefSeq Acc Id: ENST00000626531
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,071 - 110,443,778 (+)Ensembl
RefSeq Acc Id: ENST00000626572
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,347,116 - 110,418,362 (+)Ensembl
RefSeq Acc Id: ENST00000626643
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,863 - 110,418,673 (+)Ensembl
RefSeq Acc Id: ENST00000627648
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,091 - 110,431,906 (+)Ensembl
RefSeq Acc Id: ENST00000627735
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,091 - 110,432,246 (+)Ensembl
RefSeq Acc Id: ENST00000628225
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,092 - 110,421,638 (+)Ensembl
RefSeq Acc Id: ENST00000629288
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,095 - 110,423,878 (+)Ensembl
RefSeq Acc Id: ENST00000629484
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,417,500 - 110,437,621 (+)Ensembl
RefSeq Acc Id: ENST00000630179
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,918 - 110,418,362 (+)Ensembl
RefSeq Acc Id: ENST00000630298
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,155 - 110,443,111 (+)Ensembl
RefSeq Acc Id: ENST00000630455
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,091 - 110,425,438 (+)Ensembl
RefSeq Acc Id: ENST00000630488
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,417,579 - 110,437,632 (+)Ensembl
RefSeq Acc Id: ENST00000630508
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,416,063 - 110,426,192 (+)Ensembl
RefSeq Acc Id: ENST00000631010
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,415,610 - 110,418,362 (+)Ensembl
RefSeq Acc Id: ENST00000631307
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,411,020 - 110,418,356 (+)Ensembl
RefSeq Acc Id: ENST00000659565
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,784 - 110,432,340 (+)Ensembl
RefSeq Acc Id: ENST00000662452
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,525 - 110,408,877 (+)Ensembl
RefSeq Acc Id: ENST00000692984
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,777 - 110,416,274 (+)Ensembl
RefSeq Acc Id: ENST00000702544
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,784 - 110,416,274 (+)Ensembl
RefSeq Acc Id: ENST00000702827
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,836 - 110,416,274 (+)Ensembl
RefSeq Acc Id: ENST00000703055
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,407,820 - 110,413,608 (+)Ensembl
RefSeq Acc Id: ENST00000715661
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,347,576 - 110,372,305 (+)Ensembl
RefSeq Acc Id: ENST00000715662
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1110,370,154 - 110,373,003 (+)Ensembl
RefSeq Acc Id: NR_102697
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381110,407,809 - 110,416,274 (+)NCBI
GRCh371110,950,431 - 110,961,046 (+)NCBI
HuRef1108,822,114 - 108,830,580 (+)NCBI
CHM1_11111,065,739 - 111,074,221 (+)NCBI
T2T-CHM13v2.01110,422,954 - 110,431,420 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LAMTOR5-AS1 COSMIC
Ensembl Genes ENSG00000224699 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000692984 ENTREZGENE
GTEx ENSG00000224699 GTEx
HGNC ID HGNC:40823 ENTREZGENE
Human Proteome Map LAMTOR5-AS1 Human Proteome Map
NCBI Gene LAMTOR5-AS1 ENTREZGENE
RNAcentral URS000075B6D8 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-07-10 LAMTOR5-AS1  LAMTOR5 and SLC16A4 antisense RNA 1  LAMTOR5-AS1  LAMTOR5 antisense RNA 1  Symbol and/or name change 19259463 PROVISIONAL