LINC00461
Contents
Annotated Information
Name
Approved Symbol: LINC00461
Approved Name: ECONEXIN, long intergenic non-protein coding RNA 461
Synonyms: EyeLinc1, Visc-1a, Visc-1b, Visc-2, LOC645323
RefSeq ID: NR_024384
OMIM ID: 616611
Ensembl ID: ENSG00000245526
LncBook ID: HSALNT0091004
Chromosome
5q14.3
Characteristic
LINC00461 expressed in neural tissues and it is a evolutionary conserved intergenic lncRNA containing 83.0% homology with the mouse ortholog.[1]
Function
LINC00461 locates in the cytoplasm and interacts with miR-411-5p via two binding sites within LINC00461.[1]
Inhibition of LINC00461 upregulates miR-411-5p.[1]
LINC00461 is a sponge lncRNA which regulates TOP2A by sponging miR-411-5p ingliomagenesis.[1]
Expression
Compared with normal brain tissues, LINC00461 is up-regulated in glioma cells. And lower-grade glioma samples have higher level LINC00461 than the higher-grade glioma samples.[1]
Sequence
>gi|211971063|ref|NR_024384.1| Homo sapiens long intergenic non-protein coding RNA 461 (LINC00461), transcript variant 1, long non-coding RNA
000001 TTCACTCTCC ACTCCGAGGC TCAGGGAGCA AGTGCCTGGC ATGGGGGGTA AAAGTTGGCT TTTTTTTTAC TCCTTGGTCT 000080
000081 TTTGCGCCCT TCTCCCTCTC CCCAGAAGGG AAGACCCATT TAAACTATTT TAGACGCAAT CAACCAAGAA TCACCATGTG 000160
000161 GAATTGAGCG GCAGTTTTAA ATGTGTTGAG CAGGGGAGAG GAATGATGAG AAAAACATTT TTTTTTTTTT TTTTGGAGAC 000240
000241 GCCGAAAGAA GCCTGTTTGT GTGCTGCGGC CGTGCTGTGA CTTTGGATCT TGTCTTTCAG CCGGCGCCTC GGTTCCTGCC 000320
000321 CAGCTGGATT TGGGGGGCAG CATTGCCTGG CGCAGGGAGA TCAAATGAGA CTGCAAAGAA GCATAAAATG AATAGACAAT 000400
000401 CCAACCAACC AAAGACCGGG GGCAGCAGCA GGCCAGCAAG ACGGCATCTT CTCCTTCCCA GCCTAGAAGC CCTGTGAAAT 000480
000481 CGAGGATCTT CCCCCTAAAA CACATACACA CAAGATATGT GCAATCAAGC TGCCACCGCT TGGTAAAAAG CTCATGGTGC 000560
000561 CTAACCAAAA AGGATCAGGA ACAGATCCTT GAATCAGCTG TCACTTCTAT AGAATGGGAT TTTTTTTTCC TTCCTCCTTA 000640
000641 ACCTGCGCTG GAAATTGCCG TTGGCTTTAT ACATCTCTAT AGAGAGAGGC TAAAGAGTCT TGCGTGAGAA AGAAGCAATT 000720
000721 TACAATGCAA ATAGAGGCCT GTGAAGGGAC GGATGCTGCT GCTCACTCGT AACAGCTTGC TGCACCTTAA TAGCTGGTTT 000800
000801 TATTTTCTGA TATTAATAGA TGAATTGTTG GCTAACGCTG CCGGAGATTA CTTGCTGAAA GGAAAAAGAA AAGTTCGGAA 000880
000881 TAAACTCTGA AGGCAACAGA TCTCGTTTGG ATGTTTTAGC CGCGCACACA CACAAACAGA AACCAGGTCA TATTTACATA 000960
000961 AAAGGAGGAA TCTTAAGCGC GGCAAGTATC CTGGACGACC ACTCTTCGGT ACTGCCAGAA AGGATCAGGA CCTGGAGTCT 001040
001041 GGCAAGAGGA AGACAGAGGC CTGTGTGGGA AGCGAGTTGT TATCTTTGGT TATCTAGCTG TATGAGTGTA TTGGTCTTCA 001120
001121 TAAAGCTAGA TAACCGAAAG TAAAAACTCC TTCAAGATCG CCGGGGAGCG TGTGAGAATG AAAGACTACA GCCGAGAGAC 001200
001201 AGTAAAAACC AGAAAGGTCA GGAATACTTA TTGAATCTAA CTTTGTTTTT GTTTTGTTTT TTTCCTTATG ATTAAAGGTG 001280
001281 GGATGAGAGA AAATTAAATG ACACACACAT GCTAAAATAT CAAGGTTCCA GATATGTCTT GAGAGGGGTT GTTGCAGCTG 001360
001361 CAAAGGAGAA GTGTATAGTG ATAATGAGTA AAGATGCATG TGCAGTTTGT TCTATTTTAA GGCAAAAGTT ATATCAGGGA 001440
001441 TTTTTTTCTT AGAAAGGTGT TGCAGAGATG TCTGGTACCT AGTTTAAAAA TGATTCCATA ATATGTAGAC TTGGGCAGTT 001520
001521 CCTTTGGGAG GCACCTCCCT CTCAAAATTT GAAGATTGTG CTTGGAAATT ACTTTACATG TATTTGGGCT GTATGTCAAT 001600
001601 TTGTACGAAA TTAGACTTTC AGAAAAGTTT ATACTGGAAG GTTAATAATT TGTATCTACT GAGGACTTAG AGCTAGCAGG 001680
001681 CAAAATGAAA AAAAAAAAAA AAAAAGCAAG GGCTGATTTT TATTCTTCTA TTCAAAATAC AAGGACAGAT GCTTCTCTGT 001760
001761 TCCAAGAGGG TTTCCTTGAG GAAGCTACTG AAGCAGAAAG ACATGATGGA GACGAGATCG CCTCCCCTCT TGTCAAAGTG 001840
001841 TTAAAAAAAT GTTCTGTCTT ACTCTGCGCC TAGCATTGGA AATGAAAGTG ACATTTACGC CACAACCCAC GTGTGCGCCT 001920
001921 CCTCTCTTTT TGTTTAAGGA TGATCAGGTC TATCCAGGAA ACAGCTCTGG CATCCCAAAC TGAAATAATT AGGACGTATA 002000
002001 TAGACCTGAC AAAAATGGAA AGGGGGTGGG GAATCTGAGG GTCTGTCTTG CCTAATTGAT TCCGCTAAAC GGAATGCAGG 002080
002081 AGATGTGAAC GGCAGGACGC TCCGATTCCC ACGCTCGGGG GCAAGTGATA AAGCGGGGCC GGGCAGCCTA TGACAGACAG 002160
002161 CCCTGTTGGG GGGTGGGGGT ATGAAAAAAA CATCAAGTGC ACACACCATA CTCATCTCCA TCGCTTAAGA AAGTAAAGGC 002240
002241 ATTTCCCACC CACAGCCATC TGCAGCTTCC CAAATGGCAG CACCAACTGG TCTGTAGCTG CTACATAGTC TGCTTCTGTT 002320
002321 AATTTTTTAA CCACTGTTTA ATCTGGCCAT AATTAAGTTT GGCTTTCTTC GTTGTTTGAG ATTTTCAGAA TTCAAGGCAA 002400
002401 GCTAGTAGAA AGCAATTCCA AGAAAGTCCC ATGACTGCCT GCCCCTAATG TCAAAATCTC AGTCCATGAG ATTATGGCCT 002480
002481 TGTGACCACA TTTTTGCTTT TGTTTTGGGT GGGCAAATGT GTATAGAGAT AAAATACATA TCTCTATATA ACAGTCGTTA 002560
002561 TTATAATTTC ATGAGGCTTT TTACCTCTTA ACATGATACA TCTAGGAACT TGGTCTAATT GTGCTAGTAG ATATACACTA 002640
002641 GAAGTAAAAC TATAAAGTCA TTAGCCTGTA GAAAGTTGAT TATGATAACA ATATGATAAA AAGTTTGTTT TGGAATAGTC 002720
002721 TCAGCTAGAT GGGTCTAAAT AGCCATTTTA ATGTAATCTA AAAATAACAC TATGCCTAGC AGAAACTTTG GCGCTTTGGA 002800
002801 GGTCCCCATT GTCGCCTTTT CATAAAAGTC CTTAAGTTTT CCATATGTCA CCAAGCAAAC ATTTGTATAG GCATTTACAC 002880
002881 AGAAATATAA CCATTGCAAT TAGAAAATAT CCAAAATAGC CTGTTATCTT CCACGTGGCC TAGATTATTG ACAATCCCAA 002960
002961 ATATACAATT TTTCTTTAAA AGTAGTACAA TTTCCTTTGT AGCTTCAATT CCTTATATGA CTTCAGACTG GAGAAGCCTG 003040
003041 TTAAACCACT GTTAGTTTCA GTTAGAAAGT CTGAGAGACT TTATACATAA ATTCTCAATT TGGCTGCTGT ACACGTGCCA 003120
003121 GAGTTTTACT ACTGTAGTGA CCGTTGAGAA GACCCTTGTT TATTTACATT TGAAGCACTG TTTGTGCAAA CAACCTTTCA 003200
003201 TTGTTAAGTG CCTGTATTCC TTTCATTTAC TTCATGTCCA GGGGTGCTAT TTACCTAGAA CCATTGTCTA CTACAATTAA 003280
003281 CATTTACATT ACAAAGTGTG TGGTTTTCTT TTTCAAGGAG GTTCAATTAA GGCAATAAGA TGTTTGCTGG AGAAACCTAT 003360
003361 TGTTTACTGA AAGCACTCAA TGAAGTCAAA TTACTGAAGC TTTTGCCTAC ATCTTGGTCT TTTATGTAAA TATGTTAAAT 003440
003441 ATAACATCTA AGGAAAATAA ACAATATTAT AATTATGTGT TTGCCATTGT CATATCAAAC TTGCTTTGTA TCATACTAAT 003520
003521 GTTACATAAC TTATCGATCA ATAAAAATAC ATTTCAATGT TA
000081 TTTGCGCCCT TCTCCCTCTC CCCAGAAGGG AAGACCCATT TAAACTATTT TAGACGCAAT CAACCAAGAA TCACCATGTG 000160
000161 GAATTGAGCG GCAGTTTTAA ATGTGTTGAG CAGGGGAGAG GAATGATGAG AAAAACATTT TTTTTTTTTT TTTTGGAGAC 000240
000241 GCCGAAAGAA GCCTGTTTGT GTGCTGCGGC CGTGCTGTGA CTTTGGATCT TGTCTTTCAG CCGGCGCCTC GGTTCCTGCC 000320
000321 CAGCTGGATT TGGGGGGCAG CATTGCCTGG CGCAGGGAGA TCAAATGAGA CTGCAAAGAA GCATAAAATG AATAGACAAT 000400
000401 CCAACCAACC AAAGACCGGG GGCAGCAGCA GGCCAGCAAG ACGGCATCTT CTCCTTCCCA GCCTAGAAGC CCTGTGAAAT 000480
000481 CGAGGATCTT CCCCCTAAAA CACATACACA CAAGATATGT GCAATCAAGC TGCCACCGCT TGGTAAAAAG CTCATGGTGC 000560
000561 CTAACCAAAA AGGATCAGGA ACAGATCCTT GAATCAGCTG TCACTTCTAT AGAATGGGAT TTTTTTTTCC TTCCTCCTTA 000640
000641 ACCTGCGCTG GAAATTGCCG TTGGCTTTAT ACATCTCTAT AGAGAGAGGC TAAAGAGTCT TGCGTGAGAA AGAAGCAATT 000720
000721 TACAATGCAA ATAGAGGCCT GTGAAGGGAC GGATGCTGCT GCTCACTCGT AACAGCTTGC TGCACCTTAA TAGCTGGTTT 000800
000801 TATTTTCTGA TATTAATAGA TGAATTGTTG GCTAACGCTG CCGGAGATTA CTTGCTGAAA GGAAAAAGAA AAGTTCGGAA 000880
000881 TAAACTCTGA AGGCAACAGA TCTCGTTTGG ATGTTTTAGC CGCGCACACA CACAAACAGA AACCAGGTCA TATTTACATA 000960
000961 AAAGGAGGAA TCTTAAGCGC GGCAAGTATC CTGGACGACC ACTCTTCGGT ACTGCCAGAA AGGATCAGGA CCTGGAGTCT 001040
001041 GGCAAGAGGA AGACAGAGGC CTGTGTGGGA AGCGAGTTGT TATCTTTGGT TATCTAGCTG TATGAGTGTA TTGGTCTTCA 001120
001121 TAAAGCTAGA TAACCGAAAG TAAAAACTCC TTCAAGATCG CCGGGGAGCG TGTGAGAATG AAAGACTACA GCCGAGAGAC 001200
001201 AGTAAAAACC AGAAAGGTCA GGAATACTTA TTGAATCTAA CTTTGTTTTT GTTTTGTTTT TTTCCTTATG ATTAAAGGTG 001280
001281 GGATGAGAGA AAATTAAATG ACACACACAT GCTAAAATAT CAAGGTTCCA GATATGTCTT GAGAGGGGTT GTTGCAGCTG 001360
001361 CAAAGGAGAA GTGTATAGTG ATAATGAGTA AAGATGCATG TGCAGTTTGT TCTATTTTAA GGCAAAAGTT ATATCAGGGA 001440
001441 TTTTTTTCTT AGAAAGGTGT TGCAGAGATG TCTGGTACCT AGTTTAAAAA TGATTCCATA ATATGTAGAC TTGGGCAGTT 001520
001521 CCTTTGGGAG GCACCTCCCT CTCAAAATTT GAAGATTGTG CTTGGAAATT ACTTTACATG TATTTGGGCT GTATGTCAAT 001600
001601 TTGTACGAAA TTAGACTTTC AGAAAAGTTT ATACTGGAAG GTTAATAATT TGTATCTACT GAGGACTTAG AGCTAGCAGG 001680
001681 CAAAATGAAA AAAAAAAAAA AAAAAGCAAG GGCTGATTTT TATTCTTCTA TTCAAAATAC AAGGACAGAT GCTTCTCTGT 001760
001761 TCCAAGAGGG TTTCCTTGAG GAAGCTACTG AAGCAGAAAG ACATGATGGA GACGAGATCG CCTCCCCTCT TGTCAAAGTG 001840
001841 TTAAAAAAAT GTTCTGTCTT ACTCTGCGCC TAGCATTGGA AATGAAAGTG ACATTTACGC CACAACCCAC GTGTGCGCCT 001920
001921 CCTCTCTTTT TGTTTAAGGA TGATCAGGTC TATCCAGGAA ACAGCTCTGG CATCCCAAAC TGAAATAATT AGGACGTATA 002000
002001 TAGACCTGAC AAAAATGGAA AGGGGGTGGG GAATCTGAGG GTCTGTCTTG CCTAATTGAT TCCGCTAAAC GGAATGCAGG 002080
002081 AGATGTGAAC GGCAGGACGC TCCGATTCCC ACGCTCGGGG GCAAGTGATA AAGCGGGGCC GGGCAGCCTA TGACAGACAG 002160
002161 CCCTGTTGGG GGGTGGGGGT ATGAAAAAAA CATCAAGTGC ACACACCATA CTCATCTCCA TCGCTTAAGA AAGTAAAGGC 002240
002241 ATTTCCCACC CACAGCCATC TGCAGCTTCC CAAATGGCAG CACCAACTGG TCTGTAGCTG CTACATAGTC TGCTTCTGTT 002320
002321 AATTTTTTAA CCACTGTTTA ATCTGGCCAT AATTAAGTTT GGCTTTCTTC GTTGTTTGAG ATTTTCAGAA TTCAAGGCAA 002400
002401 GCTAGTAGAA AGCAATTCCA AGAAAGTCCC ATGACTGCCT GCCCCTAATG TCAAAATCTC AGTCCATGAG ATTATGGCCT 002480
002481 TGTGACCACA TTTTTGCTTT TGTTTTGGGT GGGCAAATGT GTATAGAGAT AAAATACATA TCTCTATATA ACAGTCGTTA 002560
002561 TTATAATTTC ATGAGGCTTT TTACCTCTTA ACATGATACA TCTAGGAACT TGGTCTAATT GTGCTAGTAG ATATACACTA 002640
002641 GAAGTAAAAC TATAAAGTCA TTAGCCTGTA GAAAGTTGAT TATGATAACA ATATGATAAA AAGTTTGTTT TGGAATAGTC 002720
002721 TCAGCTAGAT GGGTCTAAAT AGCCATTTTA ATGTAATCTA AAAATAACAC TATGCCTAGC AGAAACTTTG GCGCTTTGGA 002800
002801 GGTCCCCATT GTCGCCTTTT CATAAAAGTC CTTAAGTTTT CCATATGTCA CCAAGCAAAC ATTTGTATAG GCATTTACAC 002880
002881 AGAAATATAA CCATTGCAAT TAGAAAATAT CCAAAATAGC CTGTTATCTT CCACGTGGCC TAGATTATTG ACAATCCCAA 002960
002961 ATATACAATT TTTCTTTAAA AGTAGTACAA TTTCCTTTGT AGCTTCAATT CCTTATATGA CTTCAGACTG GAGAAGCCTG 003040
003041 TTAAACCACT GTTAGTTTCA GTTAGAAAGT CTGAGAGACT TTATACATAA ATTCTCAATT TGGCTGCTGT ACACGTGCCA 003120
003121 GAGTTTTACT ACTGTAGTGA CCGTTGAGAA GACCCTTGTT TATTTACATT TGAAGCACTG TTTGTGCAAA CAACCTTTCA 003200
003201 TTGTTAAGTG CCTGTATTCC TTTCATTTAC TTCATGTCCA GGGGTGCTAT TTACCTAGAA CCATTGTCTA CTACAATTAA 003280
003281 CATTTACATT ACAAAGTGTG TGGTTTTCTT TTTCAAGGAG GTTCAATTAA GGCAATAAGA TGTTTGCTGG AGAAACCTAT 003360
003361 TGTTTACTGA AAGCACTCAA TGAAGTCAAA TTACTGAAGC TTTTGCCTAC ATCTTGGTCT TTTATGTAAA TATGTTAAAT 003440
003441 ATAACATCTA AGGAAAATAA ACAATATTAT AATTATGTGT TTGCCATTGT CATATCAAAC TTGCTTTGTA TCATACTAAT 003520
003521 GTTACATAAC TTATCGATCA ATAAAAATAC ATTTCAATGT TA
Labs working on this lncRNA
- Department of Epigenomics, Nagoya City University Graduate School of Medical Sciences, Nagoya, Japan. [1]
References
- ↑ 1.0 1.1 1.2 1.3 1.4 1.5 Deguchi S, Katsushima K, Hatanaka A, Shinjo K, Ohka F, Wakabayashi T, Zong H, Natsume A, Kondo Y. Oncogenic effects of evolutionarily conserved noncoding RNA ECONEXIN on gliomagenesis. Oncogene. 2017 Aug 10;36(32):4629-4640. doi: 10.1038/onc.2017.88. Epub 2017 Apr 3. PubMed PMID: 28368417.
Predicted Small Protein
| Name | LINC00461_smProtein_2447:2590 |
| Length | 47 |
| Molecular weight | 5677.6442 |
| Aromaticity | 0.191489361702 |
| Instability index | 62.4425531915 |
| Isoelectric point | 9.18353271484 |
| Runs | 7 |
| Runs residual | 0.0173404255319 |
| Runs probability | 0.0301309713074 |
| Amino acid sequence | MSKSQSMRLWPCDHIFAFVLGGQMCIEIKYISLYNSRYYNFMRLFTS |
| Secondary structure | LLLLLLLLLLLLLLLEEEELLLLEEEEEEEEEELLLLHHHHHHHHLL |
| PRMN | LLLLLLLLLLLLLLLLHHHHHHHHHHHHHHHHHHLLLLLLLLLLLLL |
| PiMo | ooooooooooooooooTTTTTTTTTTTTTTTTTTiiiiiiiiiiiii |
