Non-Coding RNA Search

Ss1.1-rsug06_f11.5

Sequence:


               
               AGCTCAGCAGGAAAGACAGGAGTCTAAGGGCATTAAGAGCCAGAGACTTAACAGAGCAGT
GACGTGTATGCTGAGAAAAGAAAGAGAAGAAGCAGCCAGTGAGATGGAAGCAGCTTCTGT
TGCCATGGCACAGGACTCTGAGTTTCTGGATGAGGCCAAAGGGAAGACCCAGAAGAGAGG
CTCAGTGAAGCGATGGCAGGACTCATCCAGCCCGAAAAGAAAGAGGCTTTCGGTTTCCAA
GCATGAACGTGGTGGCTTTTTAGGGGAGGCCTACCTCTCGCAGTCGTCCGATGCCTCATC
GAGCGAGGATGCAGAAAGCTTCCCTTTCACGGAGAGGCAGAAGGGACCAGCTGCGGCACA
GTCAGGACCCAGCCCTCCAGGCTTTCGGAGTGCCGTGCCGCCAGCTCCCCAGAGAGACGC
AGCTGCTCCCCAGAGAGACGCAGGTGCCGCAGCGAGCAGCTCCAGCGATGATGATGGAGA
GGAGGCCAAGCCCCTCCTGGTGACGGCCAGGTCTGTATTTGGGAAGAAAAGGGGGAAACG
CAGAAGCGCAAGAGGAAGAAAGAGGAAAACCTAAATGCGCGTGTATTCTCTGGAATTGGG
TACAGCTTAACATTTCATCATGAATTTGTTGTGAGGAAATAATAAAATTTAAAGTATCTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGCTCAGCAGGAAAGACAGGAGTCTAAGGGCATTAAGAGCCAGAGACTTAACAGAGCAGT
GACGTGTATGCTGAGAAAAGAAAGAGAAGAAGCAGCCAGTGAGATGGAAGCAGCTTCTGT
TGCCATGGCACAGGACTCTGAGTTTCTGGATGAGGCCAAAGGGAAGACCCAGAAGAGAGG
CTCAGTGAAGCGATGGCAGGACTCATCCAGCCCGAAAAGAAAGAGGCTTTCGGTTTCCAA
GCATGAACGTGGTGGCTTTTTAGGGGAGGCCTACCTCTCGCAGTCGTCCGATGCCTCATC
GAGCGAGGATGCAGAAAGCTTCCCTTTCACGGAGAGGCAGAAGGGACCAGCTGCGGCACA
GTCAGGACCCAGCCCTCCAGGCTTTCGGAGTGCCGTGCCGCCAGCTCCCCAGAGAGACGC
AGCTGCTCCCCAGAGAGACGCAGGTGCCGCAGCGAGCAGCTCCAGCGATGATGATGGAGA
GGAGGCCAAGCCCCTCCTGGTGACGGCCAGGTCTGTATTTGGGAAGAAAAGGGGGAAACG
CAGAAGCGCAAGAGGAAGAAAGAGGAAAACCTAAATGCGCGTGTATTCTCTGGAATTGGG
TACAGCTTAACATTTCATCATGAATTTGTTGTGAGGAAATAATAAAATTTAAAGTATCTG

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

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

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               80-273, + strand, RNAz p=0.986735

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


               
               80-273, + strand, RNAz p=0.986735

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               80-273, DB784143 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB784143.1|), blast E-value=0, identity=100% 
               

               
               80-233, BE04028A2C07 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN442124.1|), blast E-value=1e-27, identity=85.71% 
               

               
               80-233, BovGen_00972 normal cattle brain Bos taurus cDNA clone (gb|CO872647.1|), 
blast E-value=1e-27, identity=85.71% 
               

               
               80-233, BovGen_09030 normal cattle brain Bos taurus cDNA clone (gb|CO880705.1|), 
blast E-value=1e-27, identity=85.71% 
               

               
               80-233, LB02617.CR_C09 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV886341.1|), 
blast E-value=1e-27, identity=85.71% 
               

               
               80-233, LB02987.CR.1_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE370490.1|), 
blast E-value=1e-27, identity=85.71%

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


               
               80-273, DB784143 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB784143.1|), blast E-value=0, identity=100% 
               

               
               80-233, BE04028A2C07 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN442124.1|), blast E-value=1e-27, identity=85.71% 
               

               
               80-233, BovGen_00972 normal cattle brain Bos taurus cDNA clone (gb|CO872647.1|), 
blast E-value=1e-27, identity=85.71% 
               

               
               80-233, BovGen_09030 normal cattle brain Bos taurus cDNA clone (gb|CO880705.1|), 
blast E-value=1e-27, identity=85.71% 
               

               
               80-233, LB02617.CR_C09 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV886341.1|), 
blast E-value=1e-27, identity=85.71% 
               

               
               80-233, LB02987.CR.1_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE370490.1|), 
blast E-value=1e-27, identity=85.71%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-419, gnl|bosTau2|chr12 (42385621-42386045)
               

               
               1-419, gnl|Hg17|chr13 (102325690-102326114)
               

               
               1-419, gnl|Mm7|chr1 (44420950-44421335)

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


               
               1-419, gnl|bosTau2|chr12 (42385621-42386045)
               

               
               1-419, gnl|Hg17|chr13 (102325690-102326114)
               

               
               1-419, gnl|Mm7|chr1 (44420950-44421335)

Expressed library(ies): 9 entry(ies)

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Expressed library(ies): 9 entry(ies)

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               hea (0.204499)
               

               
               fcc (0.197785)
               

               
               col (0.195008)
               

               
               cut (0.169924)
               

               
               cje (0.165235)
               

               
               che (0.136314)
               

               
               sug (0.127291)
               

               
               thg (0.126791)
               

               
               jej (0.0989218)

Expressed library(ies): 9 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


               
               hea (0.204499)
               

               
               fcc (0.197785)
               

               
               col (0.195008)
               

               
               cut (0.169924)
               

               
               cje (0.165235)
               

               
               che (0.136314)
               

               
               sug (0.127291)
               

               
               thg (0.126791)
               

               
               jej (0.0989218)

	80-273, DB784143 full-length enriched swine cDNA library, adult adrenal (dbj\|DB784143.1\|), blast E-value=0, identity=100%
	80-233, BE04028A2C07 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN442124.1\|), blast E-value=1e-27, identity=85.71%
	80-233, BovGen_00972 normal cattle brain Bos taurus cDNA clone (gb\|CO872647.1\|), blast E-value=1e-27, identity=85.71%
	80-233, BovGen_09030 normal cattle brain Bos taurus cDNA clone (gb\|CO880705.1\|), blast E-value=1e-27, identity=85.71%
	80-233, LB02617.CR_C09 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV886341.1\|), blast E-value=1e-27, identity=85.71%
	80-233, LB02987.CR.1_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE370490.1\|), blast E-value=1e-27, identity=85.71%

	1-419, gnl\|bosTau2\|chr12 (42385621-42386045)
	1-419, gnl\|Hg17\|chr13 (102325690-102326114)
	1-419, gnl\|Mm7\|chr1 (44420950-44421335)

	hea (0.204499)
	fcc (0.197785)
	col (0.195008)
	cut (0.169924)
	cje (0.165235)
	che (0.136314)
	sug (0.127291)
	thg (0.126791)
	jej (0.0989218)