Non-Coding RNA Search

Ss1.1-rpfco0101_j8.5

Sequence:


               
               AAGAATTAAGAAATCTAATATCCTTTCCCACAAGATTGTTTGAAGAATTGTGTCAAATTA
GGAACTAAACTTTTGTCTAAATTCAGAGCCTTCTATTTATTTCAATAAGCCAGACAGCTT
TATAAGTAATAACATTAATTGGGAAGCTCTTTCACACTTTTTAAGGTATGAATCTCTTTT
TTGGCAGGCATTTCAAATGTGACTCAATACAAGATGTTTTTTAAAATTTTCTACTTGTAA
AACTAAAAATGACAGGTTTCCTGTGTGACCTTCAGTTTGAGATGATTTGACCCACCTTTG
GGAGCTAAAAATCATAGCATAAAGAAAACTAAGCATGTGCATATGAGGTATTCAGTCTCT
TTATGCTCATCAAGATGTTACTGATTTAACTTGCATGAAATATATAGTGGGCTAGATTCT
TAGCCTTCCTCTATCTCTATATTGCTATATCTTTATGATGGTATATGTAGATACAGCTAT
AGAGATAGATATATATATATATAATTTGTCTCTTCTAAGTTACATATGTCTATCTATACC
TCTATCTAGATATCTGGAGATAGAGATAGACATATATAACTTCTCCATAAGGGCTAAAAT
GAGAACTTTTATAAAAGTAATGAGAATTCAATTGAATATGACTAATTAGCAGGGTATTTT
CATTAGTTCTCTTGATGCTTTACTGTGATGCAAAATACATGATGTATTTAAACATTTTAT
AATTGTTCTGATGTTAACCATTAGGCCAGATTTGTATTTCTGATGCTTTTAATGTTCTTT
TAAACTAATGTTTGGAAAATAAAAATATTGAAAACCCTAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAGAATTAAGAAATCTAATATCCTTTCCCACAAGATTGTTTGAAGAATTGTGTCAAATTA
GGAACTAAACTTTTGTCTAAATTCAGAGCCTTCTATTTATTTCAATAAGCCAGACAGCTT
TATAAGTAATAACATTAATTGGGAAGCTCTTTCACACTTTTTAAGGTATGAATCTCTTTT
TTGGCAGGCATTTCAAATGTGACTCAATACAAGATGTTTTTTAAAATTTTCTACTTGTAA
AACTAAAAATGACAGGTTTCCTGTGTGACCTTCAGTTTGAGATGATTTGACCCACCTTTG
GGAGCTAAAAATCATAGCATAAAGAAAACTAAGCATGTGCATATGAGGTATTCAGTCTCT
TTATGCTCATCAAGATGTTACTGATTTAACTTGCATGAAATATATAGTGGGCTAGATTCT
TAGCCTTCCTCTATCTCTATATTGCTATATCTTTATGATGGTATATGTAGATACAGCTAT
AGAGATAGATATATATATATATAATTTGTCTCTTCTAAGTTACATATGTCTATCTATACC
TCTATCTAGATATCTGGAGATAGAGATAGACATATATAACTTCTCCATAAGGGCTAAAAT
GAGAACTTTTATAAAAGTAATGAGAATTCAATTGAATATGACTAATTAGCAGGGTATTTT
CATTAGTTCTCTTGATGCTTTACTGTGATGCAAAATACATGATGTATTTAAACATTTTAT
AATTGTTCTGATGTTAACCATTAGGCCAGATTTGTATTTCTGATGCTTTTAATGTTCTTT
TAAACTAATGTTTGGAAAATAAAAATATTGAAAACCCTAAAAAAAAAA

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

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

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               399-616, - strand, RNAz p=0.999888

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


               
               399-616, - strand, RNAz p=0.999888

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               557-613, 1464430 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887720.1|), 
blast E-value=0.000000000001, identity=92.98% 
               

               
               557-613, 1465966 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT889115.1|), 
blast E-value=0.000000000001, identity=92.98% 
               

               
               566-613, 1477964 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT894975.1|), 
blast E-value=0.000000000004, identity=95.83% 
               

               
               504-488, POSM0605023_L24F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV902812.1|), blast E-value=6.00036e-42, identity=100% 
               

               
               399-547, POSM0605023_L24R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV902813.1|), blast E-value=0.00000000000002, identity=100% 
               

               
               566-613, 1585551 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY457792.1|), 
blast E-value=0.000000000004, identity=95.83%

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


               
               557-613, 1464430 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887720.1|), 
blast E-value=0.000000000001, identity=92.98% 
               

               
               557-613, 1465966 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT889115.1|), 
blast E-value=0.000000000001, identity=92.98% 
               

               
               566-613, 1477964 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT894975.1|), 
blast E-value=0.000000000004, identity=95.83% 
               

               
               504-488, POSM0605023_L24F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV902812.1|), blast E-value=6.00036e-42, identity=100% 
               

               
               399-547, POSM0605023_L24R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV902813.1|), blast E-value=0.00000000000002, identity=100% 
               

               
               566-613, 1585551 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY457792.1|), 
blast E-value=0.000000000004, identity=95.83%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-818, gnl|bosTau2|chr11 (25653775-25652973)
               

               
               1-818, gnl|Hg17|chr2 (53988546-53987673)
               

               
               1-818, gnl|Mm7|chr11 (30847011-30848094)

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


               
               1-818, gnl|bosTau2|chr11 (25653775-25652973)
               

               
               1-818, gnl|Hg17|chr2 (53988546-53987673)
               

               
               1-818, gnl|Mm7|chr11 (30847011-30848094)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               fco (0.943248)
               

               
               fbs (0.350693)

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


               
               fco (0.943248)
               

               
               fbs (0.350693)

	557-613, 1464430 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT887720.1\|), blast E-value=0.000000000001, identity=92.98%
	557-613, 1465966 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT889115.1\|), blast E-value=0.000000000001, identity=92.98%
	566-613, 1477964 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT894975.1\|), blast E-value=0.000000000004, identity=95.83%
	504-488, POSM0605023_L24F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV902812.1\|), blast E-value=6.00036e-42, identity=100%
	399-547, POSM0605023_L24R porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV902813.1\|), blast E-value=0.00000000000002, identity=100%
	566-613, 1585551 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY457792.1\|), blast E-value=0.000000000004, identity=95.83%

	1-818, gnl\|bosTau2\|chr11 (25653775-25652973)
	1-818, gnl\|Hg17\|chr2 (53988546-53987673)
	1-818, gnl\|Mm7\|chr11 (30847011-30848094)