Non-Coding RNA Search

Ss1.1-rduo430b_j17.5

Sequence:


               
               CTCAGTGCAGGACAGGACAACCCTCCCAGAAGTCAGCTCGTGACTGCATTCTCCTGAGGC
CAGAGGAGCCAGGTGGAGCCTTCAGGCTCAGCAGTGAGGGATTCAGAGGACATCCGAAAA
GAAGACTGGACCATTCTCCTGGGATCTCAGAGTATCAGATGGGATGGCCGGCTGGCCCTC
TCTGCTTAATTGTTGGGGCCACCTTGGTTCTGGATCTATGAAAGGCCCCACCTTCAGGTC
ACCCTTTCCCACACAGGACCAGGAACTCTGATGCAGTGAGGATCGAGGGTGTTGATCCAC
CTCTTGCAGAGGTGATGGACAAGCCCCTCGGTCAGGGCATCTTATTATTACAGCAATGGC
CCTTTCTAACACCCTGATAATCCCCCCTCACAACCACTGTGTCCTCTTAGGTACCTGGGG
AATACAGAGGAGGCTGGGATCACTTGAGACACAGAATCTTCAGAGAATTTGACTGACCTT
GTAAAGTCCTGTTTAGTGGTGGCATTGGAAGCAGGCAGAGTCCCAGTCAAAACCAAATCC
AAGAAAAAAGAAGACATTCACAAAGACTTTATAAATCCCCAGATTTTCCCCAGCCATGTC
GCCTTTCCCCAGCCCCTTTGTCGCCTTCACCCTCTATACCCTGTAATGAATAATAAACAG
AGCAAGTGGGAGGAGGGGGAAAATTCCTCCCTCCTTACTACGTGCCAGGGATAAGGCTGA
TGTCCCACAATCCATCATCTACAGCAAGAATTCAGCCCCATGCTTTTGATGATCTCAGAA
GGGCTTAGAGCAGTAGGCAAAAGAAATTGTTAACGACGAAGAGGATTGCAGAGCAATTCT
AATGCAATTATTTGGGACTATGGATGGAATAAAAAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTCAGTGCAGGACAGGACAACCCTCCCAGAAGTCAGCTCGTGACTGCATTCTCCTGAGGC
CAGAGGAGCCAGGTGGAGCCTTCAGGCTCAGCAGTGAGGGATTCAGAGGACATCCGAAAA
GAAGACTGGACCATTCTCCTGGGATCTCAGAGTATCAGATGGGATGGCCGGCTGGCCCTC
TCTGCTTAATTGTTGGGGCCACCTTGGTTCTGGATCTATGAAAGGCCCCACCTTCAGGTC
ACCCTTTCCCACACAGGACCAGGAACTCTGATGCAGTGAGGATCGAGGGTGTTGATCCAC
CTCTTGCAGAGGTGATGGACAAGCCCCTCGGTCAGGGCATCTTATTATTACAGCAATGGC
CCTTTCTAACACCCTGATAATCCCCCCTCACAACCACTGTGTCCTCTTAGGTACCTGGGG
AATACAGAGGAGGCTGGGATCACTTGAGACACAGAATCTTCAGAGAATTTGACTGACCTT
GTAAAGTCCTGTTTAGTGGTGGCATTGGAAGCAGGCAGAGTCCCAGTCAAAACCAAATCC
AAGAAAAAAGAAGACATTCACAAAGACTTTATAAATCCCCAGATTTTCCCCAGCCATGTC
GCCTTTCCCCAGCCCCTTTGTCGCCTTCACCCTCTATACCCTGTAATGAATAATAAACAG
AGCAAGTGGGAGGAGGGGGAAAATTCCTCCCTCCTTACTACGTGCCAGGGATAAGGCTGA
TGTCCCACAATCCATCATCTACAGCAAGAATTCAGCCCCATGCTTTTGATGATCTCAGAA
GGGCTTAGAGCAGTAGGCAAAAGAAATTGTTAACGACGAAGAGGATTGCAGAGCAATTCT
AATGCAATTATTTGGGACTATGGATGGAATAAAAAG

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

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

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               181-393, - strand, RNAz p=0.999965
               

               
               580-698, - strand, RNAz p=0.804444

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


               
               181-393, - strand, RNAz p=0.999965
               

               
               580-698, - strand, RNAz p=0.804444

Similar Transcript(s): 4 entry(ies)

More info

Similar Transcript(s): 4 entry(ies)

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               181-393, BW974300 full-length enriched swine cDNA library, adult periphral 
(dbj|BW974300.1|), blast E-value=0, identity=100% 
               

               
               181-393, DB819371 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819371.1|), blast E-value=0, identity=100% 
               

               
               187-393, AR073F11IBMBF11T Infected Porcine Bone Marrow cDNA library Sus 
(gb|BI327072.1|), blast E-value=0, identity=96.62% 
               

               
               195-385, 959643 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK771374.1|), 
blast E-value=2e-16, identity=81.68%

Similar Transcript(s): 4 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


               
               181-393, BW974300 full-length enriched swine cDNA library, adult periphral 
(dbj|BW974300.1|), blast E-value=0, identity=100% 
               

               
               181-393, DB819371 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819371.1|), blast E-value=0, identity=100% 
               

               
               187-393, AR073F11IBMBF11T Infected Porcine Bone Marrow cDNA library Sus 
(gb|BI327072.1|), blast E-value=0, identity=96.62% 
               

               
               195-385, 959643 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK771374.1|), 
blast E-value=2e-16, identity=81.68%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-778, gnl|bosTau2|chr2 (82308364-82309132)
               

               
               1-778, gnl|Hg17|chr1 (23946078-23945333)
               

               
               1-778, gnl|Mm7|chr4 (135296357-135297103)

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


               
               1-778, gnl|bosTau2|chr2 (82308364-82309132)
               

               
               1-778, gnl|Hg17|chr1 (23946078-23945333)
               

               
               1-778, gnl|Mm7|chr4 (135296357-135297103)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               duo (0.172801)
               

               
               cbl (0.114797)
               

               
               cty (0.10408)

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


               
               duo (0.172801)
               

               
               cbl (0.114797)
               

               
               cty (0.10408)

	181-393, - strand, RNAz p=0.999965
	580-698, - strand, RNAz p=0.804444

	181-393, BW974300 full-length enriched swine cDNA library, adult periphral (dbj\|BW974300.1\|), blast E-value=0, identity=100%
	181-393, DB819371 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB819371.1\|), blast E-value=0, identity=100%
	187-393, AR073F11IBMBF11T Infected Porcine Bone Marrow cDNA library Sus (gb\|BI327072.1\|), blast E-value=0, identity=96.62%
	195-385, 959643 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK771374.1\|), blast E-value=2e-16, identity=81.68%

	1-778, gnl\|bosTau2\|chr2 (82308364-82309132)
	1-778, gnl\|Hg17\|chr1 (23946078-23945333)
	1-778, gnl\|Mm7\|chr4 (135296357-135297103)