Non-Coding RNA Search

Ss1.1-rhlv31b_j18.5

Sequence:


               
               TCTAACTGGCTTCGGTTGATGACTTTACCTTTTCCCCATAAAGACGTGAATGATTTTCTT
CCTTACTGCTATGTAATAGATCTGTAACAAGTGAAACCTTTGCTGCTACTTTTCTGGGTT
TACATCAGTTTGTTCCTTCCCTTGAGAATAATTTATTACCTGTGCTTCTCCATGACTGTT
AATTGCTAATAAGTACAGGAAGAGGTGAGCCTGAGAGTTCTTCTCTTACTCCCCTCCTCA
CCCTACCCCCAAATTACACACTAACCTCTAACATGTGCAAGGTCTTGGGATGGGGCTCAT
CATAAGATGTGTTTTGGGGGCGTTTTTGTTTGTTTCTTTCTCACTGTGCTGCAGCTCTCA
GCCCTTGAGGATCTGTGACTACCCCGTGGAAGGGTTACTACAGGGGGAGAGAGGCCTTAA
ATGTTCCTTTCTCCATCCCTGTTTTCTGATCATCCTTCAGATGCCTCCCATTCTGGCTGC
CTCCTTTTTCCTCCCAGGAATTGTTCCCAGTGGGAAAATGACCCGCCCTGGTCATTTCCC
CACTGCTCTCCTCACCTCTGCCCACCTTCCAGTGACCCCGAGAGCACGGACCTGAGAAAT
GGGACCTGTGCAGAGCTCAGAGCTGTGAGGCCTGCCCCTGCCTGTCAGACTCTGCTTGGG
GACAGACATGGATGGGTAGATGGTGCTGTGGGAGAAATACTTTTATCTTCCAACCAGGCT
GATTCGCCCTTGCACTGTCCCGCCTCCATCCCCTCTCCCCTGAGGAGTGGGTAAATGCAG
AGGATGCTCTGTAAAATGCAGGCGCCGGGCTCTGATCCCAAACCTTGCTGTCTCGCCTAA
GCCCTGGAGCAAGAGCTTCGGTGTGTGGGAGCTGCTGCTTGCTTGTTTCTCCACCAGGCC
TGCCCCGACTCTTAAGCCAGTCCCTGGGGCCAACACAGTCCCCTGTGTAGTGACTTCACA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCTAACTGGCTTCGGTTGATGACTTTACCTTTTCCCCATAAAGACGTGAATGATTTTCTT
CCTTACTGCTATGTAATAGATCTGTAACAAGTGAAACCTTTGCTGCTACTTTTCTGGGTT
TACATCAGTTTGTTCCTTCCCTTGAGAATAATTTATTACCTGTGCTTCTCCATGACTGTT
AATTGCTAATAAGTACAGGAAGAGGTGAGCCTGAGAGTTCTTCTCTTACTCCCCTCCTCA
CCCTACCCCCAAATTACACACTAACCTCTAACATGTGCAAGGTCTTGGGATGGGGCTCAT
CATAAGATGTGTTTTGGGGGCGTTTTTGTTTGTTTCTTTCTCACTGTGCTGCAGCTCTCA
GCCCTTGAGGATCTGTGACTACCCCGTGGAAGGGTTACTACAGGGGGAGAGAGGCCTTAA
ATGTTCCTTTCTCCATCCCTGTTTTCTGATCATCCTTCAGATGCCTCCCATTCTGGCTGC
CTCCTTTTTCCTCCCAGGAATTGTTCCCAGTGGGAAAATGACCCGCCCTGGTCATTTCCC
CACTGCTCTCCTCACCTCTGCCCACCTTCCAGTGACCCCGAGAGCACGGACCTGAGAAAT
GGGACCTGTGCAGAGCTCAGAGCTGTGAGGCCTGCCCCTGCCTGTCAGACTCTGCTTGGG
GACAGACATGGATGGGTAGATGGTGCTGTGGGAGAAATACTTTTATCTTCCAACCAGGCT
GATTCGCCCTTGCACTGTCCCGCCTCCATCCCCTCTCCCCTGAGGAGTGGGTAAATGCAG
AGGATGCTCTGTAAAATGCAGGCGCCGGGCTCTGATCCCAAACCTTGCTGTCTCGCCTAA
GCCCTGGAGCAAGAGCTTCGGTGTGTGGGAGCTGCTGCTTGCTTGTTTCTCCACCAGGCC
TGCCCCGACTCTTAAGCCAGTCCCTGGGGCCAACACAGTCCCCTGTGTAGTGACTTCACA

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               139-331, - strand, RNAz p=0.954224
               

               
               366-542, - strand, RNAz p=0.999607

Predicted RNA structure(s): 2 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


               
               139-331, - strand, RNAz p=0.954224
               

               
               366-542, - strand, RNAz p=0.999607

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               420-516, + strand, RNAmicro p=0.999995
               

               
               424-518, - strand, RNAmicro p=0.952289

Predicted microRNA(s): 2 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


               
               420-516, + strand, RNAmicro p=0.999995
               

               
               424-518, - strand, RNAmicro p=0.952289

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               366-542, BP160608 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|BP160608.1|), blast E-value=0, identity=100% 
               

               
               366-505, AJ820094 KN206 Bos sp. cDNA clone C0006017g16, mRNA sequence 
(emb|AJ820094.1|), blast E-value=6e-23, identity=86.11% 
               

               
               366-491, 52768 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW416942.1|), 
blast E-value=3e-21, identity=86.61% 
               

               
               366-505, 93010 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW657571.1|), 
blast E-value=6e-23, identity=86.11% 
               

               
               366-505, 1480387 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT901196.1|), 
blast E-value=6e-23, identity=86.11% 
               

               
               366-505, 000830BEMN008083HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY045832.1|), blast E-value=6e-23, identity=86.11%

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


               
               366-542, BP160608 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|BP160608.1|), blast E-value=0, identity=100% 
               

               
               366-505, AJ820094 KN206 Bos sp. cDNA clone C0006017g16, mRNA sequence 
(emb|AJ820094.1|), blast E-value=6e-23, identity=86.11% 
               

               
               366-491, 52768 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW416942.1|), 
blast E-value=3e-21, identity=86.61% 
               

               
               366-505, 93010 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW657571.1|), 
blast E-value=6e-23, identity=86.11% 
               

               
               366-505, 1480387 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT901196.1|), 
blast E-value=6e-23, identity=86.11% 
               

               
               366-505, 000830BEMN008083HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY045832.1|), blast E-value=6e-23, identity=86.11%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               1-960, gnl|bosTau2|chr19 (34726743-34727726)
               

               
               1-960, gnl|Hg17|chr17 (34663645-34662704)

Aligned organism(s): 2 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


               
               1-960, gnl|bosTau2|chr19 (34726743-34727726)
               

               
               1-960, gnl|Hg17|chr17 (34663645-34662704)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               hlv (0.278513)
               

               
               ese (0.126502)
               

               
               cly (0.120642)

Expressed library(ies): 3 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


               
               hlv (0.278513)
               

               
               ese (0.126502)
               

               
               cly (0.120642)

	139-331, - strand, RNAz p=0.954224
	366-542, - strand, RNAz p=0.999607

	420-516, + strand, RNAmicro p=0.999995
	424-518, - strand, RNAmicro p=0.952289

	366-542, BP160608 full-length enriched swine cDNA library, adult thymus Sus (dbj\|BP160608.1\|), blast E-value=0, identity=100%
	366-505, AJ820094 KN206 Bos sp. cDNA clone C0006017g16, mRNA sequence (emb\|AJ820094.1\|), blast E-value=6e-23, identity=86.11%
	366-491, 52768 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW416942.1\|), blast E-value=3e-21, identity=86.61%
	366-505, 93010 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW657571.1\|), blast E-value=6e-23, identity=86.11%
	366-505, 1480387 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT901196.1\|), blast E-value=6e-23, identity=86.11%
	366-505, 000830BEMN008083HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY045832.1\|), blast E-value=6e-23, identity=86.11%

	1-960, gnl\|bosTau2\|chr19 (34726743-34727726)
	1-960, gnl\|Hg17\|chr17 (34663645-34662704)