Non-Coding RNA Search

Ss1.1-Lng1-LNG010060H08.5

Sequence:


               
               CAGAATCCAGATAACTTATTTGGTCCCTGGAGATACGAATAGAGAGTGGCAACTGATAGC
TCTCTTTTCCACCTTTCCCCTCCCTCTTTCCTCTGAAACTGTATCGCCTGTGATATCTTG
GGGGAAGGAAGGGCAAAGCACCAGTGTCTTGACTGTATGAAAAGGGGAAAGGAGGGTCCT
TTCCTCCTGGAGTCCTTAGAGCTGAGACAGCTGTGCGCATGCCCCTACCCATTTTTTACA
GTTCTTTTTGGGGGTAATTGGGGGTGGGAACAGTTAGGAGCAGTCAGACCAGTTTTATAT
TTTTAAGTAAAATGTTTTTATCTGTCTCTGTCCAGGGCGAGGCCCAGTGGGAGAGGGCTG
GAGGAATGAAGGGGATGCCCAGTGAGCTGTTCTTCTCTCCTTACCTGTGAAGAGTCCTGT
GTGACACACTGGGGGTTTCAGCCTTCCTGTTCTTTGTACCTTCTTGCCACCCCCTGTGGT
GGGACACCTACTCCCAATCTAGCTCTGCCAGGGAACATTCAGGAACTCATCCTAAGGGCT
GTGCAGAGTGAGTTGTAAACAGCCCACCCCCTGCAGAGCAGCTGGCTTTTGAGCTTCTGG
GGACGTGATTATCTCTGTTCACATGTGTTTACAGGGACACGGGCCCTCGCTTTCCCACAC
TTGACCTTGCTCTTGTCCTTGTTTACAAGGAGCGATTATAGCTATTTTTGTGGGGAGAGT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGAATCCAGATAACTTATTTGGTCCCTGGAGATACGAATAGAGAGTGGCAACTGATAGC
TCTCTTTTCCACCTTTCCCCTCCCTCTTTCCTCTGAAACTGTATCGCCTGTGATATCTTG
GGGGAAGGAAGGGCAAAGCACCAGTGTCTTGACTGTATGAAAAGGGGAAAGGAGGGTCCT
TTCCTCCTGGAGTCCTTAGAGCTGAGACAGCTGTGCGCATGCCCCTACCCATTTTTTACA
GTTCTTTTTGGGGGTAATTGGGGGTGGGAACAGTTAGGAGCAGTCAGACCAGTTTTATAT
TTTTAAGTAAAATGTTTTTATCTGTCTCTGTCCAGGGCGAGGCCCAGTGGGAGAGGGCTG
GAGGAATGAAGGGGATGCCCAGTGAGCTGTTCTTCTCTCCTTACCTGTGAAGAGTCCTGT
GTGACACACTGGGGGTTTCAGCCTTCCTGTTCTTTGTACCTTCTTGCCACCCCCTGTGGT
GGGACACCTACTCCCAATCTAGCTCTGCCAGGGAACATTCAGGAACTCATCCTAAGGGCT
GTGCAGAGTGAGTTGTAAACAGCCCACCCCCTGCAGAGCAGCTGGCTTTTGAGCTTCTGG
GGACGTGATTATCTCTGTTCACATGTGTTTACAGGGACACGGGCCCTCGCTTTCCCACAC
TTGACCTTGCTCTTGTCCTTGTTTACAAGGAGCGATTATAGCTATTTTTGTGGGGAGAGT

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

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

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               122-239, - strand, RNAz p=0.829385
               

               
               357-475, - strand, RNAz p=0.876505
               

               
               556-713, - strand, RNAz p=0.910321

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


               
               122-239, - strand, RNAz p=0.829385
               

               
               357-475, - strand, RNAz p=0.876505
               

               
               556-713, - strand, RNAz p=0.910321

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               556-713, BP440564 full-length enriched swine cDNA library, adult lung Sus 
(dbj|BP440564.1|), blast E-value=0, identity=100% 
               

               
               598-713, 180069 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE682150.1|), 
blast E-value=3e-24, identity=88.79% 
               

               
               598-713, 225970 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BF076410.1|), 
blast E-value=3e-24, identity=88.79% 
               

               
               601-713, Oa_splbn_06J03_M13reverse Sheep spleen\brain pSport1 library Ovis 
(gb|CN823859.1|), blast E-value=8e-25, identity=89.38% 
               

               
               598-713, Hw_liver_19_050715_E06 Bos taurus CF-24-HW liver cDNA library Bos 
(gb|DV785523.1|), blast E-value=3e-24, identity=88.79% 
               

               
               598-713, 001003BEMN033619HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY168434.1|), blast E-value=3e-24, identity=88.79%

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


               
               556-713, BP440564 full-length enriched swine cDNA library, adult lung Sus 
(dbj|BP440564.1|), blast E-value=0, identity=100% 
               

               
               598-713, 180069 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE682150.1|), 
blast E-value=3e-24, identity=88.79% 
               

               
               598-713, 225970 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BF076410.1|), 
blast E-value=3e-24, identity=88.79% 
               

               
               601-713, Oa_splbn_06J03_M13reverse Sheep spleen\brain pSport1 library Ovis 
(gb|CN823859.1|), blast E-value=8e-25, identity=89.38% 
               

               
               598-713, Hw_liver_19_050715_E06 Bos taurus CF-24-HW liver cDNA library Bos 
(gb|DV785523.1|), blast E-value=3e-24, identity=88.79% 
               

               
               598-713, 001003BEMN033619HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY168434.1|), blast E-value=3e-24, identity=88.79%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               2-713, gnl|bosTau2|chr3 (15348094-15347383)
               

               
               2-713, gnl|Hg17|chr1 (142945589-142944885)

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


               
               2-713, gnl|bosTau2|chr3 (15348094-15347383)
               

               
               2-713, gnl|Hg17|chr1 (142945589-142944885)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               eep (0.122564)

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


               
               eep (0.122564)

	122-239, - strand, RNAz p=0.829385
	357-475, - strand, RNAz p=0.876505
	556-713, - strand, RNAz p=0.910321

	556-713, BP440564 full-length enriched swine cDNA library, adult lung Sus (dbj\|BP440564.1\|), blast E-value=0, identity=100%
	598-713, 180069 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE682150.1\|), blast E-value=3e-24, identity=88.79%
	598-713, 225970 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BF076410.1\|), blast E-value=3e-24, identity=88.79%
	601-713, Oa_splbn_06J03_M13reverse Sheep spleen\brain pSport1 library Ovis (gb\|CN823859.1\|), blast E-value=8e-25, identity=89.38%
	598-713, Hw_liver_19_050715_E06 Bos taurus CF-24-HW liver cDNA library Bos (gb\|DV785523.1\|), blast E-value=3e-24, identity=88.79%
	598-713, 001003BEMN033619HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY168434.1\|), blast E-value=3e-24, identity=88.79%

	2-713, gnl\|bosTau2\|chr3 (15348094-15347383)
	2-713, gnl\|Hg17\|chr1 (142945589-142944885)