Non-Coding RNA Search

Ss1.1-Mixc-0032l21.3

Sequence:


               
               CAACGAGACGTTTCCTACCGATCTCGGCTGCCGTCTCTGTTGTCATTTCTGGGAGAGGGA
GGGGGTAGGGGTTAGGTTTGGGACTTTTTTAAAACGGTCTTGATGCGTGTGGAAAAATGC
GTGTGTGTGCGTGTGTGTGTGCGTGGCCTGTACATAGCATGGGTGCACCTGTGGATGTGT
GCAAAGGCACATGTGTATTTGTGTGTGTAAGAGAGGAGGAGGAGCCCACCTCAAGTCTGT
GAATCTGGTGAAAGTGTTGGTGCGGGCCGGGGTGACATTGATCCTGATGGGGACAGGCTG
GGTGGCCCCTTTCTCCATATCTTCTGCTTTGCCGAATCTCGGATTCAGTTTTGCGGGGTG
ACCGAAGCTCCTCTGATGCTTCTCATACTGGTTTCCCTCTGAGCTACTGCTGGTCTCCAA
TATCCAGCAGGATGGCGGAGAGGGGAACAGACCAGGTAGAACCTTAAAGCTTTGATTTGG
TGGGAAAGGCCTCTGCAGCTCATCTGAGAGGCCTCCCGGCCACCCTGGGCTCCGAGAAAT
GTGTTGGAAGCTTGTAACTTACACGTCGCTCCTGCCTTTCCGCCACATCCTCCAGCTCCC
CCACCCCCATTTCCTTTGATTTCTCAGGTCTGCCCACCTCCCCAAACCCACGGCTGGGGA
AGAGGTCTGCACAAGCTGTTTTTGCAGCTGTCCTAACCCTTCCCAGCCATCCCCCCAATT
TTGGTACCCCGATTCCTAAACTCTTAATAAGCCAAGCCACCTTGTCTCTGGGTTTAAATT
TGGGGGGGTTGTTTTTTATTAAATTTTGACTTTTTTTTTTTAAACAATCACATCGTTGAC
CTATCTAATCGGGGCTTTGTGCTTTTCCACCTTCCCCTCTGAATGAAAGCCAAGGGATGG
GGAAGAGTGGGAGCTCCGCCCAGGAGGCGGGCTGGGAAAGGTGGGTCCTGCTCCCAAAGG
CAGGCGGTCCGCTTTGCCTTGGACTTGGTGCTGGGAGTGGGGGGAGCTAGGGAGGGACAC
TTCCCACTCCCACTCGCCTTCCTTTGTCCTGATCCTGGAATTAGGTACAAGGGTTCATAG
GTTCTATTTCTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAACGAGACGTTTCCTACCGATCTCGGCTGCCGTCTCTGTTGTCATTTCTGGGAGAGGGA
GGGGGTAGGGGTTAGGTTTGGGACTTTTTTAAAACGGTCTTGATGCGTGTGGAAAAATGC
GTGTGTGTGCGTGTGTGTGTGCGTGGCCTGTACATAGCATGGGTGCACCTGTGGATGTGT
GCAAAGGCACATGTGTATTTGTGTGTGTAAGAGAGGAGGAGGAGCCCACCTCAAGTCTGT
GAATCTGGTGAAAGTGTTGGTGCGGGCCGGGGTGACATTGATCCTGATGGGGACAGGCTG
GGTGGCCCCTTTCTCCATATCTTCTGCTTTGCCGAATCTCGGATTCAGTTTTGCGGGGTG
ACCGAAGCTCCTCTGATGCTTCTCATACTGGTTTCCCTCTGAGCTACTGCTGGTCTCCAA
TATCCAGCAGGATGGCGGAGAGGGGAACAGACCAGGTAGAACCTTAAAGCTTTGATTTGG
TGGGAAAGGCCTCTGCAGCTCATCTGAGAGGCCTCCCGGCCACCCTGGGCTCCGAGAAAT
GTGTTGGAAGCTTGTAACTTACACGTCGCTCCTGCCTTTCCGCCACATCCTCCAGCTCCC
CCACCCCCATTTCCTTTGATTTCTCAGGTCTGCCCACCTCCCCAAACCCACGGCTGGGGA
AGAGGTCTGCACAAGCTGTTTTTGCAGCTGTCCTAACCCTTCCCAGCCATCCCCCCAATT
TTGGTACCCCGATTCCTAAACTCTTAATAAGCCAAGCCACCTTGTCTCTGGGTTTAAATT
TGGGGGGGTTGTTTTTTATTAAATTTTGACTTTTTTTTTTTAAACAATCACATCGTTGAC
CTATCTAATCGGGGCTTTGTGCTTTTCCACCTTCCCCTCTGAATGAAAGCCAAGGGATGG
GGAAGAGTGGGAGCTCCGCCCAGGAGGCGGGCTGGGAAAGGTGGGTCCTGCTCCCAAAGG
CAGGCGGTCCGCTTTGCCTTGGACTTGGTGCTGGGAGTGGGGGGAGCTAGGGAGGGACAC
TTCCCACTCCCACTCGCCTTCCTTTGTCCTGATCCTGGAATTAGGTACAAGGGTTCATAG
GTTCTATTTCTT

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               78-215, - strand, RNAz p=0.998195
               

               
               469-751, - strand, RNAz p=0.999605
               

               
               967-1092, - strand, RNAz p=0.984783

Predicted RNA structure(s): 3 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


               
               78-215, - strand, RNAz p=0.998195
               

               
               469-751, - strand, RNAz p=0.999605
               

               
               967-1092, - strand, RNAz p=0.984783

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               733-818, - strand, RNAmicro p=0.994326

Predicted microRNA(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               733-818, - strand, RNAmicro p=0.994326

Similar Transcript(s): 1 entry(ies)

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Similar Transcript(s): 1 entry(ies)

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               143-214, 4083909 BARC 9BOV Bos taurus cDNA clone 9BOV27_A22 5', mRNA 
(gb|CK968786.1|), blast E-value=4e-20, identity=94.44%

Similar Transcript(s): 1 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


               
               143-214, 4083909 BARC 9BOV Bos taurus cDNA clone 9BOV27_A22 5', mRNA 
(gb|CK968786.1|), blast E-value=4e-20, identity=94.44%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1092, gnl|bosTau2|chr19 (38089891-38090981)
               

               
               1-1092, gnl|Hg17|chr17 (39639507-39638358)
               

               
               1-1092, gnl|Mm7|chr11 (102415050-102413990)

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


               
               1-1092, gnl|bosTau2|chr19 (38089891-38090981)
               

               
               1-1092, gnl|Hg17|chr17 (39639507-39638358)
               

               
               1-1092, gnl|Mm7|chr11 (102415050-102413990)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               ece (0.229305)
               

               
               nep (0.183925)
               

               
               csp (0.161186)
               

               
               cly (0.120642)
               

               
               clu (0.119646)
               

               
               ecc (0.115035)

Expressed library(ies): 6 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


               
               ece (0.229305)
               

               
               nep (0.183925)
               

               
               csp (0.161186)
               

               
               cly (0.120642)
               

               
               clu (0.119646)
               

               
               ecc (0.115035)

	78-215, - strand, RNAz p=0.998195
	469-751, - strand, RNAz p=0.999605
	967-1092, - strand, RNAz p=0.984783

	1-1092, gnl\|bosTau2\|chr19 (38089891-38090981)
	1-1092, gnl\|Hg17\|chr17 (39639507-39638358)
	1-1092, gnl\|Mm7\|chr11 (102415050-102413990)

	ece (0.229305)
	nep (0.183925)
	csp (0.161186)
	cly (0.120642)
	clu (0.119646)
	ecc (0.115035)