Non-Coding RNA Search

Ss1.1-rmed20c_k23.5

Sequence:


               
               CTCTCGCTGCCGTGTGTCTTGCAGATGTGCCAAAATGGCCCCTTCCTCCTCCCCTGTCCG
CCATTTCTCACCCTCTCCCCACAGCTCTCTCAAAGCAATACAGTTCCTCCTGCTTGGGGG
ACGGCAAGACAGGGGAGAGGGTTGGGTTGGGGACCTGGGGGTTCCCTGTGTACAGCTGTG
TATATTCAGGGGTGTTCTCTGTCTGGTACCCGCTGTGGGCGTCTCTGTGTGTGTGAACCT
CCCCTTCCCCTGCCCTGCATGACCTGTGATGCTGCAGACACCACCATCCTGTGTGCAGTG
GTGTGCTGGGGGCAATGAGGGGCATGTCCCATGTCTCGTTGCACCCTCCACCCTGTGACC
CATGTACTCGGTTGTAGGAAGTAAAGAGAACTGAGCACAATTCACTGGATTCTAGTTGAA
TCTTTCTCTAAGCAATGTTCCCCTTCCTGCCCTTCTCCCTGCCCTGGATCCACCTGTGGT
GCTAGCGTTGGGGTCAGGGGGTGTTTAATGCTGGTGGGCAGCAATAAAGGGCAGACCTGC
CCAGATGCCTGTATCCCAGGGTGCTGAGGGCAGCAGGAAAAAGTGGGGACCTCAGTGCAT
TTGTCCTGCCCCTCCCCCTCCTCCATGGGCTAAAGCACAATGCTCTCCCCGCAGATCGAT
GCACCCCCACGCCCTCTAGGCCCCTCTTCCCGTATCCTCCCCCTCTCTGCTTCGAGCCTT
CCTCCCGCCACATCCTGGTTTTCTATGCTGTTTTGGTGCAAGTACAACTGTCGTAGTCAT
GGCTTTGGGATGGGTTCTGTTTATTAAAATCCTATT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTCTCGCTGCCGTGTGTCTTGCAGATGTGCCAAAATGGCCCCTTCCTCCTCCCCTGTCCG
CCATTTCTCACCCTCTCCCCACAGCTCTCTCAAAGCAATACAGTTCCTCCTGCTTGGGGG
ACGGCAAGACAGGGGAGAGGGTTGGGTTGGGGACCTGGGGGTTCCCTGTGTACAGCTGTG
TATATTCAGGGGTGTTCTCTGTCTGGTACCCGCTGTGGGCGTCTCTGTGTGTGTGAACCT
CCCCTTCCCCTGCCCTGCATGACCTGTGATGCTGCAGACACCACCATCCTGTGTGCAGTG
GTGTGCTGGGGGCAATGAGGGGCATGTCCCATGTCTCGTTGCACCCTCCACCCTGTGACC
CATGTACTCGGTTGTAGGAAGTAAAGAGAACTGAGCACAATTCACTGGATTCTAGTTGAA
TCTTTCTCTAAGCAATGTTCCCCTTCCTGCCCTTCTCCCTGCCCTGGATCCACCTGTGGT
GCTAGCGTTGGGGTCAGGGGGTGTTTAATGCTGGTGGGCAGCAATAAAGGGCAGACCTGC
CCAGATGCCTGTATCCCAGGGTGCTGAGGGCAGCAGGAAAAAGTGGGGACCTCAGTGCAT
TTGTCCTGCCCCTCCCCCTCCTCCATGGGCTAAAGCACAATGCTCTCCCCGCAGATCGAT
GCACCCCCACGCCCTCTAGGCCCCTCTTCCCGTATCCTCCCCCTCTCTGCTTCGAGCCTT
CCTCCCGCCACATCCTGGTTTTCTATGCTGTTTTGGTGCAAGTACAACTGTCGTAGTCAT
GGCTTTGGGATGGGTTCTGTTTATTAAAATCCTATT

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

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

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               118-237, - strand, RNAz p=0.568416
               

               
               472-693, - strand, RNAz p=0.99817

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


               
               118-237, - strand, RNAz p=0.568416
               

               
               472-693, - strand, RNAz p=0.99817

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               472-656, DB382856 VESEN1 Homo sapiens cDNA clone VESEN1000221 3', mRNA 
(dbj|DB382856.1|), blast E-value=8.96831e-44, identity=88.71% 
               

               
               472-656, DB383049 VESEN1 Homo sapiens cDNA clone VESEN1000462 3', mRNA 
(dbj|DB383049.1|), blast E-value=8.96831e-44, identity=88.71% 
               

               
               472-656, DB383767 VESEN2 Homo sapiens cDNA clone VESEN2000527 3', mRNA 
(dbj|DB383767.1|), blast E-value=8.96831e-44, identity=88.71% 
               

               
               472-693, POSM0100008_D12 porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190317.1|), blast E-value=0, identity=99.1% 
               

               
               472-666, ip28g02.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CK998204.1|), blast E-value=0, identity=89.9% 
               

               
               472-666, io97d05.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CN001902.1|), blast E-value=0, identity=89.9%

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


               
               472-656, DB382856 VESEN1 Homo sapiens cDNA clone VESEN1000221 3', mRNA 
(dbj|DB382856.1|), blast E-value=8.96831e-44, identity=88.71% 
               

               
               472-656, DB383049 VESEN1 Homo sapiens cDNA clone VESEN1000462 3', mRNA 
(dbj|DB383049.1|), blast E-value=8.96831e-44, identity=88.71% 
               

               
               472-656, DB383767 VESEN2 Homo sapiens cDNA clone VESEN2000527 3', mRNA 
(dbj|DB383767.1|), blast E-value=8.96831e-44, identity=88.71% 
               

               
               472-693, POSM0100008_D12 porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190317.1|), blast E-value=0, identity=99.1% 
               

               
               472-666, ip28g02.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CK998204.1|), blast E-value=0, identity=89.9% 
               

               
               472-666, io97d05.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CN001902.1|), blast E-value=0, identity=89.9%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-816, gnl|bosTau2|chr5 (33387084-33387910)
               

               
               1-816, gnl|Hg17|chr12 (54918667-54917865)
               

               
               1-816, gnl|Mm7|chr10 (127896669-127897460)

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


               
               1-816, gnl|bosTau2|chr5 (33387084-33387910)
               

               
               1-816, gnl|Hg17|chr12 (54918667-54917865)
               

               
               1-816, gnl|Mm7|chr10 (127896669-127897460)

Expressed library(ies): 7 entry(ies)

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Expressed library(ies): 7 entry(ies)

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               col (0.195008)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               cov (0.132153)
               

               
               cly (0.120642)
               

               
               med (0.116252)

Expressed library(ies): 7 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


               
               col (0.195008)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               cov (0.132153)
               

               
               cly (0.120642)
               

               
               med (0.116252)

	118-237, - strand, RNAz p=0.568416
	472-693, - strand, RNAz p=0.99817

	472-656, DB382856 VESEN1 Homo sapiens cDNA clone VESEN1000221 3', mRNA (dbj\|DB382856.1\|), blast E-value=8.96831e-44, identity=88.71%
	472-656, DB383049 VESEN1 Homo sapiens cDNA clone VESEN1000462 3', mRNA (dbj\|DB383049.1\|), blast E-value=8.96831e-44, identity=88.71%
	472-656, DB383767 VESEN2 Homo sapiens cDNA clone VESEN2000527 3', mRNA (dbj\|DB383767.1\|), blast E-value=8.96831e-44, identity=88.71%
	472-693, POSM0100008_D12 porcine skeletal muscle cDNA library (PoSM) Sus (gb\|BM190317.1\|), blast E-value=0, identity=99.1%
	472-666, ip28g02.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris (gb\|CK998204.1\|), blast E-value=0, identity=89.9%
	472-666, io97d05.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris (gb\|CN001902.1\|), blast E-value=0, identity=89.9%

	1-816, gnl\|bosTau2\|chr5 (33387084-33387910)
	1-816, gnl\|Hg17\|chr12 (54918667-54917865)
	1-816, gnl\|Mm7\|chr10 (127896669-127897460)

	col (0.195008)
	hyp (0.142837)
	pty (0.142714)
	lnt (0.142308)
	cov (0.132153)
	cly (0.120642)
	med (0.116252)