LINC01681 (long intergenic non-protein coding RNA 1681) - Rat Genome Database

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Gene: LINC01681 (long intergenic non-protein coding RNA 1681) Homo sapiens
Analyze
Symbol: LINC01681
Name: long intergenic non-protein coding RNA 1681
RGD ID: 11563157
HGNC Page HGNC:52468
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
GRCh381170,174,379 - 170,241,570 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1170,173,865 - 170,304,358 (+)EnsemblGRCh38hg38GRCh38
GRCh371170,143,520 - 170,210,711 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map1q24.2NCBI
CHM1_11171,565,385 - 171,633,285 (+)NCBICHM1_1
T2T-CHM13v2.01169,530,279 - 169,597,502 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:16344560  


Genomics

Variants

.
Variants in LINC01681
14 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 1q23.1-25.1(chr1:157747246-176021247)x3 copy number gain See cases [RCV000051854] Chr1:157747246..176021247 [GRCh38]
Chr1:157717036..175990383 [GRCh37]
Chr1:155983660..174257006 [NCBI36]
Chr1:1q23.1-25.1		 pathogenic
GRCh38/hg38 1q23.3-25.2(chr1:164922655-180061589)x3 copy number gain See cases [RCV000051856] Chr1:164922655..180061589 [GRCh38]
Chr1:164891892..180030724 [GRCh37]
Chr1:163158516..178297347 [NCBI36]
Chr1:1q23.3-25.2		 pathogenic
GRCh38/hg38 1q23.3-25.1(chr1:163382523-175877022)x1 copy number loss See cases [RCV000143292] Chr1:163382523..175877022 [GRCh38]
Chr1:163352313..175846158 [GRCh37]
Chr1:161618937..174112781 [NCBI36]
Chr1:1q23.3-25.1		 pathogenic
GRCh38/hg38 1q24.2-25.2(chr1:169218236-178075834)x1 copy number loss See cases [RCV000137128] Chr1:169218236..178075834 [GRCh38]
Chr1:169187474..178044969 [GRCh37]
Chr1:167454098..176311592 [NCBI36]
Chr1:1q24.2-25.2		 pathogenic
GRCh38/hg38 1q21.2-25.2(chr1:149854269-180267197)x3 copy number gain See cases [RCV000143515] Chr1:149854269..180267197 [GRCh38]
Chr1:149825831..180236332 [GRCh37]
Chr1:148092455..178502955 [NCBI36]
Chr1:1q21.2-25.2		 pathogenic
GRCh38/hg38 1q24.2-31.1(chr1:170036068-187555148)x1 copy number loss See cases [RCV000143688] Chr1:170036068..187555148 [GRCh38]
Chr1:170005209..187524280 [GRCh37]
Chr1:168271833..185790903 [NCBI36]
Chr1:1q24.2-31.1		 pathogenic
GRCh38/hg38 1q23.3-25.1(chr1:161740907-173965154)x1 copy number loss See cases [RCV000053914] Chr1:161740907..173965154 [GRCh38]
Chr1:161710697..173934292 [GRCh37]
Chr1:159977321..172200915 [NCBI36]
Chr1:1q23.3-25.1		 pathogenic
GRCh38/hg38 1q23.3-24.3(chr1:164036599-171252077)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053916]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053916]|See cases [RCV000053916] Chr1:164036599..171252077 [GRCh38]
Chr1:164005836..171221216 [GRCh37]
Chr1:162272460..169487840 [NCBI36]
Chr1:1q23.3-24.3		 pathogenic
GRCh38/hg38 1q24.1-25.1(chr1:166762832-175327423)x1 copy number loss See cases [RCV000053917] Chr1:166762832..175327423 [GRCh38]
Chr1:166732069..175296559 [GRCh37]
Chr1:164998693..173563182 [NCBI36]
Chr1:1q24.1-25.1		 pathogenic
GRCh38/hg38 1q24.2-25.1(chr1:168314822-175299299)x1 copy number loss See cases [RCV000053918] Chr1:168314822..175299299 [GRCh38]
Chr1:168284060..175268435 [GRCh37]
Chr1:166550684..173535058 [NCBI36]
Chr1:1q24.2-25.1		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:160
Count of miRNA genes:157
Interacting mature miRNAs:159
Transcripts:ENST00000439184
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 3 1 3 133
Low 4 5 96 36 16 36 7 8 4 3 251 22 3 3 1
Below cutoff 208 577 392 132 80 116 609 404 237 55 120 186 17 306 292 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000439184
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,403 - 170,241,287 (+)Ensembl
RefSeq Acc Id: ENST00000654877
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,387 - 170,241,569 (+)Ensembl
RefSeq Acc Id: ENST00000654909
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,367 - 170,241,571 (+)Ensembl
RefSeq Acc Id: ENST00000657163
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,234,755 - 170,241,564 (+)Ensembl
RefSeq Acc Id: ENST00000657208
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,615 - 170,241,564 (+)Ensembl
RefSeq Acc Id: ENST00000660112
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,592 - 170,241,564 (+)Ensembl
RefSeq Acc Id: ENST00000661719
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,173,865 - 170,241,571 (+)Ensembl
RefSeq Acc Id: ENST00000661826
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,204,621 - 170,241,564 (+)Ensembl
RefSeq Acc Id: ENST00000666308
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,365 - 170,304,358 (+)Ensembl
RefSeq Acc Id: ENST00000669101
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,367 - 170,241,571 (+)Ensembl
RefSeq Acc Id: ENST00000669112
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,367 - 170,241,571 (+)Ensembl
RefSeq Acc Id: ENST00000669113
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,367 - 170,241,564 (+)Ensembl
RefSeq Acc Id: ENST00000671647
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1170,174,367 - 170,241,562 (+)Ensembl
RefSeq Acc Id: NR_146891
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381170,174,379 - 170,241,570 (+)NCBI
T2T-CHM13v2.01169,530,279 - 169,597,502 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LINC01681 COSMIC
Ensembl Genes ENSG00000233985 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000654909 ENTREZGENE
GTEx ENSG00000233985 GTEx
HGNC ID HGNC:52468 ENTREZGENE
Human Proteome Map LINC01681 Human Proteome Map
NCBI Gene LINC01681 ENTREZGENE
RNAcentral URS0000BC448B RNACentral