Non-Coding RNA Search

Ss1.1-LyN2-AR044C12LN05MC12S.5

Sequence:


               
               GAGAATGGAGCTCATCCTCTTGAGAGGAGCCAAGAGGAACCCGGTTCAACTGGTGGGACC
TCTCATAAACGTGCCAAAGATGATTCTCTCTCCTCCTTGGAAAGCCCCCAGGAAGAGAAA
CCAAAGCAAGATATAGGACCCCTCGAGTCCTCACCTCTGGACTCCACCGCACCTCACATG
TGCGAGGGACCCACTCTTTCTCCAGAACCAGATTTGCCCAACCTGCTCTCCTCCCATGAT
GCAGTCGTGCAATGTCGAAAGCGCACATCAGAGACAGAGCCATCCGGAGACAACCTTCTT
TCTTCAAAAATCGAGCGCCCGTCAGGGAGTTCTAAGCCTTTCCACAGGTCAAGACCAGGA
AGACCTCAGAGCCTAATCTTATTCAGTCCTCCTTTCCCCATTATGGACCACCCGCCCACC
TCATCTACAGGGACAGATTCCAAGGTCCTGCTGTCCCCTATCATAAGTCCCACTCATACA
ATTTCCCCTGGGCTTCTTTGTGGAGAGTTGGCAGATAACACATGGGTCACACCAGAAGGG
GTTACACTTAGGAATAAAATGACCATCCCTAAGAATGGCCAGAGACTAGAGACCTCAACC
AGCTGTTTGTACCAGCCCCAGCGGAGATCAGTGATTCTGGATGCAAGAAGTGGGAGGCAA
ATAGAATGACAGCAGCTCACCTACTGGTGTCTGAAAAAAAAAAAAATTCATGATTCATCT
GGAAGTTATTATAGGGGCAACTTGCCTTTTTCCAGGCAGAGGTTATCCAAGTTTGGTCTT
ATTTGGGCCTCTTCTCTTTCTTCTGCCTTTTGACCATGTATTAATTAGGCCATTTGCCAG
AAGAGAGGTCAAGTAAAGGACCAAAAGATGAAACACAAATAAGCCTATATGAGCAGGCAG
GGAAAGGTCAGGTGAGGGAAAAGGATGAGATGCTGGCCTCCAGTGATACCTGGGGCTTAT
GAGTTGCGTCATTCCCCCAGTGCCATGATCTACTACCGTGAGAGCTGGATGTGGTAATCT
ATTTCGAAAGAGAGAAATCCTATGCCTGTGTTGGAAAATGTTGCTATTGAGGTTTGAAGA
CCTCCTATTTACTTCATGCTTTTTAATGCTCTCTAAAGTATGTGTTCT------------
TTCTGATAAGCTTTGTAAAAGCATACTATCCAGAAT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGAATGGAGCTCATCCTCTTGAGAGGAGCCAAGAGGAACCCGGTTCAACTGGTGGGACC
TCTCATAAACGTGCCAAAGATGATTCTCTCTCCTCCTTGGAAAGCCCCCAGGAAGAGAAA
CCAAAGCAAGATATAGGACCCCTCGAGTCCTCACCTCTGGACTCCACCGCACCTCACATG
TGCGAGGGACCCACTCTTTCTCCAGAACCAGATTTGCCCAACCTGCTCTCCTCCCATGAT
GCAGTCGTGCAATGTCGAAAGCGCACATCAGAGACAGAGCCATCCGGAGACAACCTTCTT
TCTTCAAAAATCGAGCGCCCGTCAGGGAGTTCTAAGCCTTTCCACAGGTCAAGACCAGGA
AGACCTCAGAGCCTAATCTTATTCAGTCCTCCTTTCCCCATTATGGACCACCCGCCCACC
TCATCTACAGGGACAGATTCCAAGGTCCTGCTGTCCCCTATCATAAGTCCCACTCATACA
ATTTCCCCTGGGCTTCTTTGTGGAGAGTTGGCAGATAACACATGGGTCACACCAGAAGGG
GTTACACTTAGGAATAAAATGACCATCCCTAAGAATGGCCAGAGACTAGAGACCTCAACC
AGCTGTTTGTACCAGCCCCAGCGGAGATCAGTGATTCTGGATGCAAGAAGTGGGAGGCAA
ATAGAATGACAGCAGCTCACCTACTGGTGTCTGAAAAAAAAAAAAATTCATGATTCATCT
GGAAGTTATTATAGGGGCAACTTGCCTTTTTCCAGGCAGAGGTTATCCAAGTTTGGTCTT
ATTTGGGCCTCTTCTCTTTCTTCTGCCTTTTGACCATGTATTAATTAGGCCATTTGCCAG
AAGAGAGGTCAAGTAAAGGACCAAAAGATGAAACACAAATAAGCCTATATGAGCAGGCAG
GGAAAGGTCAGGTGAGGGAAAAGGATGAGATGCTGGCCTCCAGTGATACCTGGGGCTTAT
GAGTTGCGTCATTCCCCCAGTGCCATGATCTACTACCGTGAGAGCTGGATGTGGTAATCT
ATTTCGAAAGAGAGAAATCCTATGCCTGTGTTGGAAAATGTTGCTATTGAGGTTTGAAGA
CCTCCTATTTACTTCATGCTTTTTAATGCTCTCTAAAGTATGTGTTCT------------
TTCTGATAAGCTTTGTAAAAGCATACTATCCAGAAT

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               1-239, - strand, RNAz p=0.99875
               

               
               400-639, - strand, RNAz p=0.639805
               

               
               856-971, + strand, RNAz p=0.782874

Predicted RNA structure(s): 3 entry(ies)

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PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               1-239, - strand, RNAz p=0.99875
               

               
               400-639, - strand, RNAz p=0.639805
               

               
               856-971, + strand, RNAz p=0.782874

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               414-512, + strand, RNAmicro p=0.93961

Predicted microRNA(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               414-512, + strand, RNAmicro p=0.93961

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1-236, BP437728 full-length enriched swine cDNA library, adult lung Sus 
(dbj|BP437728.1|), blast E-value=0, identity=99.15% 
               

               
               1-236, 17000533134359 GRN_EB Homo sapiens cDNA 5', mRNA sequence 
(gb|CN357594.1|), blast E-value=8e-29, identity=82.2% 
               

               
               1-227, 1367092 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN534159.1|), 
blast E-value=9e-38, identity=84.14% 
               

               
               22-227, 1403367 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN740969.1|), 
blast E-value=9e-35, identity=84.47% 
               

               
               1-227, LB03023.CR_A13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV931535.1|), 
blast E-value=2e-35, identity=83.7% 
               

               
               1-227, 000209BCXB007754HT BCXB Bos taurus cDNA, mRNA sequence (gb|DY179799.1|), 
blast E-value=5e-33, identity=83.26%

Similar Transcript(s): 6 entry(ies)

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PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               1-236, BP437728 full-length enriched swine cDNA library, adult lung Sus 
(dbj|BP437728.1|), blast E-value=0, identity=99.15% 
               

               
               1-236, 17000533134359 GRN_EB Homo sapiens cDNA 5', mRNA sequence 
(gb|CN357594.1|), blast E-value=8e-29, identity=82.2% 
               

               
               1-227, 1367092 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN534159.1|), 
blast E-value=9e-38, identity=84.14% 
               

               
               22-227, 1403367 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN740969.1|), 
blast E-value=9e-35, identity=84.47% 
               

               
               1-227, LB03023.CR_A13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV931535.1|), 
blast E-value=2e-35, identity=83.7% 
               

               
               1-227, 000209BCXB007754HT BCXB Bos taurus cDNA, mRNA sequence (gb|DY179799.1|), 
blast E-value=5e-33, identity=83.26%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1150, gnl|bosTau2|chr1 (41147528-41148675)
               

               
               1-1150, gnl|Hg17|chr3 (120617133-120618297)
               

               
               1-1150, gnl|Mm7|chr16 (38313038-38311889)

Aligned organism(s): 3 entry(ies)

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PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               1-1150, gnl|bosTau2|chr1 (41147528-41148675)
               

               
               1-1150, gnl|Hg17|chr3 (120617133-120618297)
               

               
               1-1150, gnl|Mm7|chr16 (38313038-38311889)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               pla (0.133672)

Expressed library(ies): 1 entry(ies)

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Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               pla (0.133672)

	1-239, - strand, RNAz p=0.99875
	400-639, - strand, RNAz p=0.639805
	856-971, + strand, RNAz p=0.782874

	1-236, BP437728 full-length enriched swine cDNA library, adult lung Sus (dbj\|BP437728.1\|), blast E-value=0, identity=99.15%
	1-236, 17000533134359 GRN_EB Homo sapiens cDNA 5', mRNA sequence (gb\|CN357594.1\|), blast E-value=8e-29, identity=82.2%
	1-227, 1367092 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN534159.1\|), blast E-value=9e-38, identity=84.14%
	22-227, 1403367 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN740969.1\|), blast E-value=9e-35, identity=84.47%
	1-227, LB03023.CR_A13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV931535.1\|), blast E-value=2e-35, identity=83.7%
	1-227, 000209BCXB007754HT BCXB Bos taurus cDNA, mRNA sequence (gb\|DY179799.1\|), blast E-value=5e-33, identity=83.26%

	1-1150, gnl\|bosTau2\|chr1 (41147528-41148675)
	1-1150, gnl\|Hg17\|chr3 (120617133-120618297)
	1-1150, gnl\|Mm7\|chr16 (38313038-38311889)