Difference between revisions of "ENST00000417473.2"
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==Annotated Information==
===Transcriptomic Nomeclature===
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| − | + | ''LINC00570'' (Long Intergenic Non-Protein Coding RNA 570) is a non-coding RNA gene, with a possible role in transcriptional activation of gene expression. | |
| + | ==Annotated Information== | ||
| + | ===Name=== | ||
| + | ''LINC00570'', Long Intergenic Non-Protein Coding RNA 570 [https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/43717 (HGNC:43717)] | ||
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| + | ===Alias=== | ||
| + | Noncoding RNA-Activating 5, ncRNA-a5 [https://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=full_report&list_uids=100874055 (NCBI:100874055)] | ||
| − | == | + | ===Characteristics=== |
| − | === | + | ''LINC00570'' also known as ncRNA-a5 has chromosomal location at 2p25.1. It is adjacent to the ''E2F6'' gene and upstream of ''LINC00570'' is ''ROCK2'' gene. In vitro translation assay confirmed that this ncRNA does not yield any protein product <ref name="ref1" />. |
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===Function=== | ===Function=== | ||
| − | + | Studies have uncovered a new biological function of this ncRNA which is positive regulation of gene expression.''LINC00570'' play a major role in transcriptional activation of its upstream gene ''ROCK2''<ref name="ref1" />. | |
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===Expression=== | ===Expression=== | ||
| − | + | Using rapid amplification of 5′ and 3′ complementary DNA ends (5′ and 3′ RACE), PCR and in vitro translation, expression of ncRNA-a5 was confirmed in HeLa cells. Knock-down of ncRNA-a5 did not affect its adjacent E2F6 gene. However, depletion of ncRNA-a5 resulted in a specific reduction in ROCK2 expression levels in HeLa cells, which is located upstream of ncRNA-a5 <ref name="ref1" />. | |
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| − | ==Labs working | + | ==Labs working== |
| − | + | *The Wistar Institute, 3601 Spruce Street, Philadelphia, PA 19104 | |
| + | *Centre for Genomic Regulation (CRG), UPF, Barcelona, Spain | ||
==References== | ==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> | ||
{{basic| | {{basic| | ||
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sequence = <dnaseq>CGGAAGAGTGGGACGTTATGGAACCTTCTCAGCTTATTCAGAGAGGCTTCTTCTTCCTATTTAGTCTCCCTCTGGCTTTCCCTGCTGGGATCTGGGTGGTAGAAGCAGCAGGGGGATCAACGAACAGGCTGAGCGCCAAGAAGCCTGAAGATTCCAGAATCTAGCGGGAAAAGCATTCAGAGTCAGAATGAGCCACTTCCAGCATCGATGGTGTCAGGTCAGGTCCTCTGGGTAGAAGAAATGGAGTCAGTTAGGAGTGCTGGAGACTGAGTAAGAGGTGGCAGCTGAGGCTTACTACCCCAGGAAAGGGATGCCACCAGAGAAGGCAGACAACCAAGATGGCGACTCTCAATTTTTGAGCTCCTAATTTTCTCATGTCAGACATAAGAAAAAAAAATATTTTTTAAAGAAAAAGCTTTAGGTTGCAAAAATCTAGGCCTTTCAACTTTAAAATCCTATTCTTGCAAGCCTTGGAGAATAAAGCTTATGCATAAACAGTAGATTTGGAAACAGAAATATGCCTAATTACCCAGAGCCATTCTTTCAATACGCCAGTGATTGTTTAAAGATTCTATAGGCTGGAGTCAATGGCAGGAGGCGGGTGGGAAAAGAGTCAAGAGGGAGGAGAGAAGAAGCAAGAGGGTTGGGTAGATATTGTCACATGACCCTGAGAGGAGGATTCTGGGTCAAACCCCTAGGGGGTTGTGTGTAATGGAGACTCCAGATCCATTTGGGAATCTGGCTCCAAAGAAGACTTCACCTTGCCTTCTGAGTGGAGCCCTGAAGTGGCAAGACTCATAGAATTCCCCCACGGGTCCACACAAGAGAGAATGAATAGAGAAGGCTGCGTGCTGGCTGGACCAAGGCAGCCTCGGGTGACACCACCACCACCACCGCCGCTGCCGCCATCGCCATCACCACTGCCGCTGCCATCACCGCCACCACCACCACCATCACCACCACCATCACCACATTATGGACAATAGCCCAATGTTTCCTGAGTTCCCTAGAGGGTTGAAAGAGAATAGGACCTAGAGAGATCACATAGTTGGGACAGGCACTCATTAATTTGATCCAATGACAAGAGACCAGATGGGAAGAAGGATGCCTTGAGAGATGTCAGTGTGCACCCATGGATAGAAGCAGCTGGTGACTGGGTACTTGGGAAGCCACATGGACACACACAAAGCTCCTGGAAGACGTTTTCAAGGAGTTGGGCTGTGCTGGGATCCAGAACTGGCTGAAGAAACCATGAGCTGACATAAAATTTCTGCCACCTAGCAGAATGGAGGCTCCATTTGGAAATTAAATTATATACTTAAAAAAACTA</dnaseq>| | sequence = <dnaseq>CGGAAGAGTGGGACGTTATGGAACCTTCTCAGCTTATTCAGAGAGGCTTCTTCTTCCTATTTAGTCTCCCTCTGGCTTTCCCTGCTGGGATCTGGGTGGTAGAAGCAGCAGGGGGATCAACGAACAGGCTGAGCGCCAAGAAGCCTGAAGATTCCAGAATCTAGCGGGAAAAGCATTCAGAGTCAGAATGAGCCACTTCCAGCATCGATGGTGTCAGGTCAGGTCCTCTGGGTAGAAGAAATGGAGTCAGTTAGGAGTGCTGGAGACTGAGTAAGAGGTGGCAGCTGAGGCTTACTACCCCAGGAAAGGGATGCCACCAGAGAAGGCAGACAACCAAGATGGCGACTCTCAATTTTTGAGCTCCTAATTTTCTCATGTCAGACATAAGAAAAAAAAATATTTTTTAAAGAAAAAGCTTTAGGTTGCAAAAATCTAGGCCTTTCAACTTTAAAATCCTATTCTTGCAAGCCTTGGAGAATAAAGCTTATGCATAAACAGTAGATTTGGAAACAGAAATATGCCTAATTACCCAGAGCCATTCTTTCAATACGCCAGTGATTGTTTAAAGATTCTATAGGCTGGAGTCAATGGCAGGAGGCGGGTGGGAAAAGAGTCAAGAGGGAGGAGAGAAGAAGCAAGAGGGTTGGGTAGATATTGTCACATGACCCTGAGAGGAGGATTCTGGGTCAAACCCCTAGGGGGTTGTGTGTAATGGAGACTCCAGATCCATTTGGGAATCTGGCTCCAAAGAAGACTTCACCTTGCCTTCTGAGTGGAGCCCTGAAGTGGCAAGACTCATAGAATTCCCCCACGGGTCCACACAAGAGAGAATGAATAGAGAAGGCTGCGTGCTGGCTGGACCAAGGCAGCCTCGGGTGACACCACCACCACCACCGCCGCTGCCGCCATCGCCATCACCACTGCCGCTGCCATCACCGCCACCACCACCACCATCACCACCACCATCACCACATTATGGACAATAGCCCAATGTTTCCTGAGTTCCCTAGAGGGTTGAAAGAGAATAGGACCTAGAGAGATCACATAGTTGGGACAGGCACTCATTAATTTGATCCAATGACAAGAGACCAGATGGGAAGAAGGATGCCTTGAGAGATGTCAGTGTGCACCCATGGATAGAAGCAGCTGGTGACTGGGTACTTGGGAAGCCACATGGACACACACAAAGCTCCTGGAAGACGTTTTCAAGGAGTTGGGCTGTGCTGGGATCCAGAACTGGCTGAAGAAACCATGAGCTGACATAAAATTTCTGCCACCTAGCAGAATGGAGGCTCCATTTGGAAATTAAATTATATACTTAAAAAAACTA</dnaseq>| | ||
}} | }} | ||
| − | [[Category:Intergenic]] | + | [[Category:Intergenic]][[Category:lnc-GREB1-4]][[Category:NONHSAG027008]][[Category:Transcripts]] |
Latest revision as of 07:14, 15 November 2018
LINC00570 (Long Intergenic Non-Protein Coding RNA 570) is a non-coding RNA gene, with a possible role in transcriptional activation of gene expression.
Contents
Annotated Information
Name
LINC00570, Long Intergenic Non-Protein Coding RNA 570 (HGNC:43717)
Alias
Noncoding RNA-Activating 5, ncRNA-a5 (NCBI:100874055)
Characteristics
LINC00570 also known as ncRNA-a5 has chromosomal location at 2p25.1. It is adjacent to the E2F6 gene and upstream of LINC00570 is ROCK2 gene. In vitro translation assay confirmed that this ncRNA does not yield any protein product [1].
Function
Studies have uncovered a new biological function of this ncRNA which is positive regulation of gene expression.LINC00570 play a major role in transcriptional activation of its upstream gene ROCK2[1].
Expression
Using rapid amplification of 5′ and 3′ complementary DNA ends (5′ and 3′ RACE), PCR and in vitro translation, expression of ncRNA-a5 was confirmed in HeLa cells. Knock-down of ncRNA-a5 did not affect its adjacent E2F6 gene. However, depletion of ncRNA-a5 resulted in a specific reduction in ROCK2 expression levels in HeLa cells, which is located upstream of ncRNA-a5 [1].
Labs working
- The Wistar Institute, 3601 Spruce Street, Philadelphia, PA 19104
- Centre for Genomic Regulation (CRG), UPF, Barcelona, Spain
References
Basic Information
| Transcript ID |
ENST00000417473.2 |
| Source |
Gencode19 |
| Same with |
lnc-GREB1-4:1,NONHSAT069164 |
| Classification |
intergenic |
| Length |
1330 nt |
| Genomic location |
chr2+:11534107..11543203 |
| Exon number |
3 |
| Exons |
11534107..11534297,11540498..11540583,11542151..11543203 |
| Genome context |
|
| Sequence |
000001 CGGAAGAGTG GGACGTTATG GAACCTTCTC AGCTTATTCA GAGAGGCTTC TTCTTCCTAT TTAGTCTCCC TCTGGCTTTC 000080
000081 CCTGCTGGGA TCTGGGTGGT AGAAGCAGCA GGGGGATCAA CGAACAGGCT GAGCGCCAAG AAGCCTGAAG ATTCCAGAAT 000160 000161 CTAGCGGGAA AAGCATTCAG AGTCAGAATG AGCCACTTCC AGCATCGATG GTGTCAGGTC AGGTCCTCTG GGTAGAAGAA 000240 000241 ATGGAGTCAG TTAGGAGTGC TGGAGACTGA GTAAGAGGTG GCAGCTGAGG CTTACTACCC CAGGAAAGGG ATGCCACCAG 000320 000321 AGAAGGCAGA CAACCAAGAT GGCGACTCTC AATTTTTGAG CTCCTAATTT TCTCATGTCA GACATAAGAA AAAAAAATAT 000400 000401 TTTTTAAAGA AAAAGCTTTA GGTTGCAAAA ATCTAGGCCT TTCAACTTTA AAATCCTATT CTTGCAAGCC TTGGAGAATA 000480 000481 AAGCTTATGC ATAAACAGTA GATTTGGAAA CAGAAATATG CCTAATTACC CAGAGCCATT CTTTCAATAC GCCAGTGATT 000560 000561 GTTTAAAGAT TCTATAGGCT GGAGTCAATG GCAGGAGGCG GGTGGGAAAA GAGTCAAGAG GGAGGAGAGA AGAAGCAAGA 000640 000641 GGGTTGGGTA GATATTGTCA CATGACCCTG AGAGGAGGAT TCTGGGTCAA ACCCCTAGGG GGTTGTGTGT AATGGAGACT 000720 000721 CCAGATCCAT TTGGGAATCT GGCTCCAAAG AAGACTTCAC CTTGCCTTCT GAGTGGAGCC CTGAAGTGGC AAGACTCATA 000800 000801 GAATTCCCCC ACGGGTCCAC ACAAGAGAGA ATGAATAGAG AAGGCTGCGT GCTGGCTGGA CCAAGGCAGC CTCGGGTGAC 000880 000881 ACCACCACCA CCACCGCCGC TGCCGCCATC GCCATCACCA CTGCCGCTGC CATCACCGCC ACCACCACCA CCATCACCAC 000960 000961 CACCATCACC ACATTATGGA CAATAGCCCA ATGTTTCCTG AGTTCCCTAG AGGGTTGAAA GAGAATAGGA CCTAGAGAGA 001040 001041 TCACATAGTT GGGACAGGCA CTCATTAATT TGATCCAATG ACAAGAGACC AGATGGGAAG AAGGATGCCT TGAGAGATGT 001120 001121 CAGTGTGCAC CCATGGATAG AAGCAGCTGG TGACTGGGTA CTTGGGAAGC CACATGGACA CACACAAAGC TCCTGGAAGA 001200 001201 CGTTTTCAAG GAGTTGGGCT GTGCTGGGAT CCAGAACTGG CTGAAGAAAC CATGAGCTGA CATAAAATTT CTGCCACCTA 001280 001281 GCAGAATGGA GGCTCCATTT GGAAATTAAA TTATATACTT AAAAAAACTA |
