Difference between revisions of "LINC00853"
Chunlei Yu (talk | contribs) (Created page with "==Annotated Information== ===Approved Symbol=== LINC00853 ===Approved Name=== long intergenic non-protein coding RNA 853 ===Previous Symbols=== PDZK1IP1-AS1 ===Synonyms=== ncR...") |
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| + | ''LINC00853'', long intergenic non-protein coding RNA 853, serves an important regulatory role in gene expression. | ||
==Annotated Information== | ==Annotated Information== | ||
===Approved Symbol=== | ===Approved Symbol=== | ||
| − | LINC00853 | + | ''LINC00853'' [https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/43716 (HGNC:43716)] |
===Approved Name=== | ===Approved Name=== | ||
| − | long intergenic non-protein coding RNA 853 | + | long intergenic non-protein coding RNA 853 [https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/43716 (HGNC:43716)] |
===Previous Symbols=== | ===Previous Symbols=== | ||
| − | PDZK1IP1-AS1 | + | PDZK1IP1-AS1 [https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/43716 (HGNC:43716)] |
===Synonyms=== | ===Synonyms=== | ||
| − | ncRNA-a4 | + | ncRNA-a4 [https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/43716 (HGNC:43716)] |
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
===Ensembl ID=== | ===Ensembl ID=== | ||
ENSG00000224805 | ENSG00000224805 | ||
===pubmed IDs=== | ===pubmed IDs=== | ||
20887892 | 20887892 | ||
| + | |||
| + | ===Characteristics=== | ||
| + | ''LINC00853'' is a long intergenic noncoding RNA also known as ncRNA-a4 which does not overlap annotated protein-coding regions. It has chromosomal location at 1p33. In vitro translation assay confirmed that this ncRNA does not yield any protein product <ref name="ref1" />. | ||
| + | |||
| + | ===Function=== | ||
| + | ''LINC00853'' plays a major role in transcriptional activation of the gene ''CMPK1'' which is over 150 kb downstream of it <ref name="ref1" />. | ||
| + | |||
| + | ===Regulation=== | ||
| + | siRNAs specific to ncRNA-a4 reproducibly reduced its levels by about 50 percent <ref name="ref1" />. | ||
| + | |||
| + | ===Expression=== | ||
| + | Expression of ''LINC00853'' was reliably detected in Jurkat cells, however, it was not expressed at a detectable level in MCF7 cells in a qPCR study. Importantly, reduced levels of ''LINC00853'' resulted in a consistent and significant decrease in the level of the gene ''CMPK1'' but no change was detected in the other protein-coding genes surrounding ''LINC00853''. Depletion of ''LINC00853'' resulted in a partial decrease in transcriptional enhancement suggesting that other DNA elements may also contribute to increased transcription <ref name="ref1" />. | ||
| + | |||
| + | ==Labs Working== | ||
| + | *The Wistar Institute, 3601 Spruce Street, Philadelphia, PA 19104 | ||
| + | *Centre for Genomic Regulation (CRG), UPF, Barcelona, Spain | ||
| + | |||
| + | ==References== | ||
| + | <references> | ||
| + | <ref name="ref1"> Ørom UA, Derrien T, Beringer M, Gumireddy K, Gardini A, Bussotti G et al. Long noncoding RNAs with enhancer-like function in human cells[J]. Cell. 2010, 143(1):46-58.</ref>(1) | ||
| + | </references> | ||
| + | |||
===Sequence=== | ===Sequence=== | ||
>gi|389565499|ref|NR_047498.1| Homo sapiens long intergenic non-protein coding RNA 853 (LINC00853), long non-coding RNA | >gi|389565499|ref|NR_047498.1| Homo sapiens long intergenic non-protein coding RNA 853 (LINC00853), long non-coding RNA | ||
<dnaseq>GCCGCGCCTGAAGCTCAACTTCCGAGGCTCTCATCAATCTACGCTTCCTTTGGAGCGTGCAGCCACCAGGTGGCAGCCGAGGCCACGGGCAGACAGAAAAGCTCCCGAAACTGAAGGACTGCCAGGCAGCAGAGTTCCGGAGGGCTCCCAGGACCTTCAACCAGAAAGAGACAGAGCATATGCGCATATCCCTGCAAGGAATGTACTATAGAGCCAATTTTACCGGCAAAGGAATGGAAGATCTGAAAGGCTAGGCGATCCCACAAGCATCGAGGAGCAGGCTGGAATTTGAACCAATCGGCATGATTCCCAAGCTCAAGCTTTTGGCCACCCCTGCACTGCCAGGGACAAAAAAAAAAAAAAAAAAAAACCCTGGGAGGAGAGCCAAGCTAGGGAGTCAAGACCCTCCAGCCAGGTCTGGATGGGAGGCAGGTGCCTCCACCCTGGTCCCAGAGCAAGTTCTGCTGGCTTCAGCCACCTGACTTCCCTGTGAAGGTGGGTAGAGGCCAGAGCAGACTGTGTGTGATTCTGGCCCCAGCCCCAGCACCTCTACCCCCACCTTTACTACCCCTAGGCTGCGGGAAGAGGCTTTGCCCAGCAATAGTCCTGATCTAATGGATCCTTGAAGCACAATAAACAGATAGTATTTCTGCATGTGTCAAAAAAAAA</dnaseq> | <dnaseq>GCCGCGCCTGAAGCTCAACTTCCGAGGCTCTCATCAATCTACGCTTCCTTTGGAGCGTGCAGCCACCAGGTGGCAGCCGAGGCCACGGGCAGACAGAAAAGCTCCCGAAACTGAAGGACTGCCAGGCAGCAGAGTTCCGGAGGGCTCCCAGGACCTTCAACCAGAAAGAGACAGAGCATATGCGCATATCCCTGCAAGGAATGTACTATAGAGCCAATTTTACCGGCAAAGGAATGGAAGATCTGAAAGGCTAGGCGATCCCACAAGCATCGAGGAGCAGGCTGGAATTTGAACCAATCGGCATGATTCCCAAGCTCAAGCTTTTGGCCACCCCTGCACTGCCAGGGACAAAAAAAAAAAAAAAAAAAAACCCTGGGAGGAGAGCCAAGCTAGGGAGTCAAGACCCTCCAGCCAGGTCTGGATGGGAGGCAGGTGCCTCCACCCTGGTCCCAGAGCAAGTTCTGCTGGCTTCAGCCACCTGACTTCCCTGTGAAGGTGGGTAGAGGCCAGAGCAGACTGTGTGTGATTCTGGCCCCAGCCCCAGCACCTCTACCCCCACCTTTACTACCCCTAGGCTGCGGGAAGAGGCTTTGCCCAGCAATAGTCCTGATCTAATGGATCCTTGAAGCACAATAAACAGATAGTATTTCTGCATGTGTCAAAAAAAAA</dnaseq> | ||
Latest revision as of 05:35, 16 November 2018
LINC00853, long intergenic non-protein coding RNA 853, serves an important regulatory role in gene expression.
Contents
Annotated Information
Approved Symbol
LINC00853 (HGNC:43716)
Approved Name
long intergenic non-protein coding RNA 853 (HGNC:43716)
Previous Symbols
PDZK1IP1-AS1 (HGNC:43716)
Synonyms
ncRNA-a4 (HGNC:43716)
Ensembl ID
ENSG00000224805
pubmed IDs
20887892
Characteristics
LINC00853 is a long intergenic noncoding RNA also known as ncRNA-a4 which does not overlap annotated protein-coding regions. It has chromosomal location at 1p33. In vitro translation assay confirmed that this ncRNA does not yield any protein product [1].
Function
LINC00853 plays a major role in transcriptional activation of the gene CMPK1 which is over 150 kb downstream of it [1].
Regulation
siRNAs specific to ncRNA-a4 reproducibly reduced its levels by about 50 percent [1].
Expression
Expression of LINC00853 was reliably detected in Jurkat cells, however, it was not expressed at a detectable level in MCF7 cells in a qPCR study. Importantly, reduced levels of LINC00853 resulted in a consistent and significant decrease in the level of the gene CMPK1 but no change was detected in the other protein-coding genes surrounding LINC00853. Depletion of LINC00853 resulted in a partial decrease in transcriptional enhancement suggesting that other DNA elements may also contribute to increased transcription [1].
Labs Working
- The Wistar Institute, 3601 Spruce Street, Philadelphia, PA 19104
- Centre for Genomic Regulation (CRG), UPF, Barcelona, Spain
References
Sequence
>gi|389565499|ref|NR_047498.1| Homo sapiens long intergenic non-protein coding RNA 853 (LINC00853), long non-coding RNA
000001 GCCGCGCCTG AAGCTCAACT TCCGAGGCTC TCATCAATCT ACGCTTCCTT TGGAGCGTGC AGCCACCAGG TGGCAGCCGA 000080
000081 GGCCACGGGC AGACAGAAAA GCTCCCGAAA CTGAAGGACT GCCAGGCAGC AGAGTTCCGG AGGGCTCCCA GGACCTTCAA 000160
000161 CCAGAAAGAG ACAGAGCATA TGCGCATATC CCTGCAAGGA ATGTACTATA GAGCCAATTT TACCGGCAAA GGAATGGAAG 000240
000241 ATCTGAAAGG CTAGGCGATC CCACAAGCAT CGAGGAGCAG GCTGGAATTT GAACCAATCG GCATGATTCC CAAGCTCAAG 000320
000321 CTTTTGGCCA CCCCTGCACT GCCAGGGACA AAAAAAAAAA AAAAAAAAAA CCCTGGGAGG AGAGCCAAGC TAGGGAGTCA 000400
000401 AGACCCTCCA GCCAGGTCTG GATGGGAGGC AGGTGCCTCC ACCCTGGTCC CAGAGCAAGT TCTGCTGGCT TCAGCCACCT 000480
000481 GACTTCCCTG TGAAGGTGGG TAGAGGCCAG AGCAGACTGT GTGTGATTCT GGCCCCAGCC CCAGCACCTC TACCCCCACC 000560
000561 TTTACTACCC CTAGGCTGCG GGAAGAGGCT TTGCCCAGCA ATAGTCCTGA TCTAATGGAT CCTTGAAGCA CAATAAACAG 000640
000641 ATAGTATTTC TGCATGTGTC AAAAAAAAA
000081 GGCCACGGGC AGACAGAAAA GCTCCCGAAA CTGAAGGACT GCCAGGCAGC AGAGTTCCGG AGGGCTCCCA GGACCTTCAA 000160
000161 CCAGAAAGAG ACAGAGCATA TGCGCATATC CCTGCAAGGA ATGTACTATA GAGCCAATTT TACCGGCAAA GGAATGGAAG 000240
000241 ATCTGAAAGG CTAGGCGATC CCACAAGCAT CGAGGAGCAG GCTGGAATTT GAACCAATCG GCATGATTCC CAAGCTCAAG 000320
000321 CTTTTGGCCA CCCCTGCACT GCCAGGGACA AAAAAAAAAA AAAAAAAAAA CCCTGGGAGG AGAGCCAAGC TAGGGAGTCA 000400
000401 AGACCCTCCA GCCAGGTCTG GATGGGAGGC AGGTGCCTCC ACCCTGGTCC CAGAGCAAGT TCTGCTGGCT TCAGCCACCT 000480
000481 GACTTCCCTG TGAAGGTGGG TAGAGGCCAG AGCAGACTGT GTGTGATTCT GGCCCCAGCC CCAGCACCTC TACCCCCACC 000560
000561 TTTACTACCC CTAGGCTGCG GGAAGAGGCT TTGCCCAGCA ATAGTCCTGA TCTAATGGAT CCTTGAAGCA CAATAAACAG 000640
000641 ATAGTATTTC TGCATGTGTC AAAAAAAAA
