Non-Coding RNA Search

Ss1.1-Mixc-0041,n03.5

Sequence:


               
               GGGCTTTGAGCCGTTCCCTAGAAGGGTGGTAGAAGATGACGCGAAAGCGCCCCCTGAAAC
ATCCAGTCGTATGGATTACGAGAGCACGGAGTCTGGCAGACTTGAACCATCCTGTTGTAT
CATTTCACCCGTTTACCTGTTCTCTGCTAATGCAATCTTAATTTATTGTTTTACTATTTA
ATTGACCCAAAGAGCAGCTAACAATTACATAAGATTGGAAATCAACAGTTTGTTTTTTTT
CTAATGACGTGTATGATGATATGTAATAGAGACTTTTTTACTGTTTCTAAGAGTGAAAAG
AAAATCGCTCACATTTCCTATCCTCACGTTTCAGGTTAGGAGGGCAGATCTTTTCCTTTG
ATTGGTTTAGGTTCTTGGCAAGTTAGGTAATGCTAAACTTGATTGTCTAGAAACAGCAGT
TCTCTCTATGACCAACCTCAGTTAGCTGGGATGCTCAGGGAATGGAAGTTTTCTGGTTTT
GCCAGAAAACCCCTTTTTTTTCCTATTTCAATACTGGTTGAAAACCATTAAAAATATGAT
AATAATCCACTTTCTTGTCTTAACACAGTATCCTAGATAGAGTTTAACTTCTTGATTTGG
GATCCCTCGGTGCTTTGGGATCATGATTTCTAAACACCGGGGTCACAGGATTACAGACCC
TGATGATGTGGGCACTTGAGCTGGAAGCAGCTCCCAAGGTGAGGCGGGCACATTGCCCTG
GAAGTTTTCTTTTTAAATAAATCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGGCTTTGAGCCGTTCCCTAGAAGGGTGGTAGAAGATGACGCGAAAGCGCCCCCTGAAAC
ATCCAGTCGTATGGATTACGAGAGCACGGAGTCTGGCAGACTTGAACCATCCTGTTGTAT
CATTTCACCCGTTTACCTGTTCTCTGCTAATGCAATCTTAATTTATTGTTTTACTATTTA
ATTGACCCAAAGAGCAGCTAACAATTACATAAGATTGGAAATCAACAGTTTGTTTTTTTT
CTAATGACGTGTATGATGATATGTAATAGAGACTTTTTTACTGTTTCTAAGAGTGAAAAG
AAAATCGCTCACATTTCCTATCCTCACGTTTCAGGTTAGGAGGGCAGATCTTTTCCTTTG
ATTGGTTTAGGTTCTTGGCAAGTTAGGTAATGCTAAACTTGATTGTCTAGAAACAGCAGT
TCTCTCTATGACCAACCTCAGTTAGCTGGGATGCTCAGGGAATGGAAGTTTTCTGGTTTT
GCCAGAAAACCCCTTTTTTTTCCTATTTCAATACTGGTTGAAAACCATTAAAAATATGAT
AATAATCCACTTTCTTGTCTTAACACAGTATCCTAGATAGAGTTTAACTTCTTGATTTGG
GATCCCTCGGTGCTTTGGGATCATGATTTCTAAACACCGGGGTCACAGGATTACAGACCC
TGATGATGTGGGCACTTGAGCTGGAAGCAGCTCCCAAGGTGAGGCGGGCACATTGCCCTG
GAAGTTTTCTTTTTAAATAAATCT

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               386-583, - strand, RNAz p=0.99616

Predicted RNA structure(s): 1 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


               
               386-583, - strand, RNAz p=0.99616

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               386-583, DB819525 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819525.1|), blast E-value=0, identity=94.47% 
               

               
               386-578, AM015696 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007414i06 
(emb|AM015696.1|), blast E-value=2e-20, identity=81.96% 
               

               
               388-578, AM018845 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007414c17 
(emb|AM018845.1|), blast E-value=2e-19, identity=81.77% 
               

               
               388-578, 4107744 BARC 9BOV Bos taurus cDNA clone 9BOV34_B23 5', mRNA 
(gb|CK976599.1|), blast E-value=2e-19, identity=81.77% 
               

               
               388-578, UMC-bof_0A02-018-g05 Ovarian follicle recruited bof Bos taurus cDNA 
(gb|DN823383.1|), blast E-value=2e-19, identity=81.77% 
               

               
               387-578, DR010022A10C06 Canine normalized retinal cDNA library Canis 
(gb|DT540760.1|), blast E-value=6e-23, identity=83.94%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               386-583, DB819525 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819525.1|), blast E-value=0, identity=94.47% 
               

               
               386-578, AM015696 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007414i06 
(emb|AM015696.1|), blast E-value=2e-20, identity=81.96% 
               

               
               388-578, AM018845 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007414c17 
(emb|AM018845.1|), blast E-value=2e-19, identity=81.77% 
               

               
               388-578, 4107744 BARC 9BOV Bos taurus cDNA clone 9BOV34_B23 5', mRNA 
(gb|CK976599.1|), blast E-value=2e-19, identity=81.77% 
               

               
               388-578, UMC-bof_0A02-018-g05 Ovarian follicle recruited bof Bos taurus cDNA 
(gb|DN823383.1|), blast E-value=2e-19, identity=81.77% 
               

               
               387-578, DR010022A10C06 Canine normalized retinal cDNA library Canis 
(gb|DT540760.1|), blast E-value=6e-23, identity=83.94%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               43-744, gnl|bosTau2|chr16 (53566384-53567096)
               

               
               43-744, gnl|Hg17|chr1 (208502829-208502153)
               

               
               43-744, gnl|Mm7|chr1 (191175573-191176169)

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


               
               43-744, gnl|bosTau2|chr16 (53566384-53567096)
               

               
               43-744, gnl|Hg17|chr1 (208502829-208502153)
               

               
               43-744, gnl|Mm7|chr1 (191175573-191176169)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               fce (0.271592)
               

               
               cki (0.165235)

Expressed library(ies): 2 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


               
               fce (0.271592)
               

               
               cki (0.165235)

	386-583, DB819525 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB819525.1\|), blast E-value=0, identity=94.47%
	386-578, AM015696 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007414i06 (emb\|AM015696.1\|), blast E-value=2e-20, identity=81.96%
	388-578, AM018845 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007414c17 (emb\|AM018845.1\|), blast E-value=2e-19, identity=81.77%
	388-578, 4107744 BARC 9BOV Bos taurus cDNA clone 9BOV34_B23 5', mRNA (gb\|CK976599.1\|), blast E-value=2e-19, identity=81.77%
	388-578, UMC-bof_0A02-018-g05 Ovarian follicle recruited bof Bos taurus cDNA (gb\|DN823383.1\|), blast E-value=2e-19, identity=81.77%
	387-578, DR010022A10C06 Canine normalized retinal cDNA library Canis (gb\|DT540760.1\|), blast E-value=6e-23, identity=83.94%

	43-744, gnl\|bosTau2\|chr16 (53566384-53567096)
	43-744, gnl\|Hg17\|chr1 (208502829-208502153)
	43-744, gnl\|Mm7\|chr1 (191175573-191176169)