Non-Coding RNA Search

Ss1.1-rlnt11c_m1.5

Sequence:


               
               CCGCGGCCCCGCGCTCTCGGCGCGGCTCCCCACCCCTCTGCTTTGCCTCTTGCTGCTGGC
GCCCCACCACCTCTGACTGCGGTGCTGTGACTGAAGAGGCCAGTGTGTTCCCCTCCTGCC
CCCTTCCCTCATCCCCCATGCGGCTCTGGCCCAATCCCCGCCCCGGCCTTGTGGCCTTGC
TGCCTTCTTTCCTCGCCCAGGTCCTCTCTTCCCCAGGACCAGGCCACCGCTCCCCGCCTC
CCGGGCTGCTGGCTTACGGCAGCCCCAGGAGGACCTGTCTGGCGGCTCAGCCCTGTTCGG
CCCATCTCTGGCCATTAACCGATCCCATCCCAAGGCTGGGGTGGGCGCCCCAGGCAGCCG
CTGACCCCTTTTCCCAGCGCCCACCGTGGACTCGGGAGGGGCTTTGTCTGCAGAGCATCT
TCCACCAGCAGAGCCTTTGGAAGCTCCCGGGGCGGGAGCCCCCCACCCCCACCCCCAGGA
GCCCTTTGAAGGGATGCTTCAGCCGGGGCCAGGCCAACACTAGGCCCCCGCTTATCCTAG
CCATCCTCAGCCTCCCGACACTGGAGAAATACTTTTCTCCTAAGTCTACCCTGGACACTT
TTTAGGGTGCCTGGAGAGAACTTTCGTCTCCACCACGGCCCCTGTGTGGTGAAGATCAAC
AGAAGTTGTTTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCGCGGCCCCGCGCTCTCGGCGCGGCTCCCCACCCCTCTGCTTTGCCTCTTGCTGCTGGC
GCCCCACCACCTCTGACTGCGGTGCTGTGACTGAAGAGGCCAGTGTGTTCCCCTCCTGCC
CCCTTCCCTCATCCCCCATGCGGCTCTGGCCCAATCCCCGCCCCGGCCTTGTGGCCTTGC
TGCCTTCTTTCCTCGCCCAGGTCCTCTCTTCCCCAGGACCAGGCCACCGCTCCCCGCCTC
CCGGGCTGCTGGCTTACGGCAGCCCCAGGAGGACCTGTCTGGCGGCTCAGCCCTGTTCGG
CCCATCTCTGGCCATTAACCGATCCCATCCCAAGGCTGGGGTGGGCGCCCCAGGCAGCCG
CTGACCCCTTTTCCCAGCGCCCACCGTGGACTCGGGAGGGGCTTTGTCTGCAGAGCATCT
TCCACCAGCAGAGCCTTTGGAAGCTCCCGGGGCGGGAGCCCCCCACCCCCACCCCCAGGA
GCCCTTTGAAGGGATGCTTCAGCCGGGGCCAGGCCAACACTAGGCCCCCGCTTATCCTAG
CCATCCTCAGCCTCCCGACACTGGAGAAATACTTTTCTCCTAAGTCTACCCTGGACACTT
TTTAGGGTGCCTGGAGAGAACTTTCGTCTCCACCACGGCCCCTGTGTGGTGAAGATCAAC
AGAAGTTGTTTG

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

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

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               194-322, - strand, RNAz p=0.999598
               

               
               396-671, - strand, RNAz p=0.993648

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


               
               194-322, - strand, RNAz p=0.999598
               

               
               396-671, - strand, RNAz p=0.993648

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               222-405, + strand, RNAmicro p=0.999986
               

               
               228-372, - strand, RNAmicro p=0.997376
               

               
               628-727, - strand, RNAmicro p=0.916745

Predicted microRNA(s): 3 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


               
               222-405, + strand, RNAmicro p=0.999986
               

               
               228-372, - strand, RNAmicro p=0.997376
               

               
               628-727, - strand, RNAmicro p=0.916745

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               477-448, hd86d04.g1 Canis Total Brain cDNAs Canis familiaris cDNA clone 
(gb|BQ235814.1|), blast E-value=0.000000000000001, identity=100% 
               

               
               545-448, UI-H-FE1-bee-i-13-0-UI.s2 NCI_CGAP_FE1 Homo sapiens cDNA clone 
(gb|CA748968.1|), blast E-value=0.0000000000003, identity=97.83% 
               

               
               553-663, BovGen_07682 normal cattle brain Bos taurus cDNA clone 
(gb|CO879355.1|), blast E-value=7.00649e-45, identity=96.4% 
               

               
               553-663, BovGen_21853 normal cattle brain Bos taurus cDNA clone 
(gb|CO893528.1|), blast E-value=7.00649e-45, identity=96.4% 
               

               
               553-663, 1372248 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN536167.1|), 
blast E-value=7.00649e-45, identity=96.4% 
               

               
               553-663, 1373784 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN537585.1|), 
blast E-value=7.00649e-45, identity=96.4%

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


               
               477-448, hd86d04.g1 Canis Total Brain cDNAs Canis familiaris cDNA clone 
(gb|BQ235814.1|), blast E-value=0.000000000000001, identity=100% 
               

               
               545-448, UI-H-FE1-bee-i-13-0-UI.s2 NCI_CGAP_FE1 Homo sapiens cDNA clone 
(gb|CA748968.1|), blast E-value=0.0000000000003, identity=97.83% 
               

               
               553-663, BovGen_07682 normal cattle brain Bos taurus cDNA clone 
(gb|CO879355.1|), blast E-value=7.00649e-45, identity=96.4% 
               

               
               553-663, BovGen_21853 normal cattle brain Bos taurus cDNA clone 
(gb|CO893528.1|), blast E-value=7.00649e-45, identity=96.4% 
               

               
               553-663, 1372248 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN536167.1|), 
blast E-value=7.00649e-45, identity=96.4% 
               

               
               553-663, 1373784 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN537585.1|), 
blast E-value=7.00649e-45, identity=96.4%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-671, gnl|bosTau2|chr15 (50691925-50691279)
               

               
               1-671, gnl|Hg17|chr11 (57000885-57001547)
               

               
               1-671, gnl|Mm7|chr2 (84715737-84715059)

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


               
               1-671, gnl|bosTau2|chr15 (50691925-50691279)
               

               
               1-671, gnl|Hg17|chr11 (57000885-57001547)
               

               
               1-671, gnl|Mm7|chr2 (84715737-84715059)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               nep (0.183925)
               

               
               spl (0.143184)
               

               
               lnt (0.142308)
               

               
               ecc (0.115035)

Expressed library(ies): 4 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


               
               nep (0.183925)
               

               
               spl (0.143184)
               

               
               lnt (0.142308)
               

               
               ecc (0.115035)

	194-322, - strand, RNAz p=0.999598
	396-671, - strand, RNAz p=0.993648

	222-405, + strand, RNAmicro p=0.999986
	228-372, - strand, RNAmicro p=0.997376
	628-727, - strand, RNAmicro p=0.916745

	477-448, hd86d04.g1 Canis Total Brain cDNAs Canis familiaris cDNA clone (gb\|BQ235814.1\|), blast E-value=0.000000000000001, identity=100%
	545-448, UI-H-FE1-bee-i-13-0-UI.s2 NCI_CGAP_FE1 Homo sapiens cDNA clone (gb\|CA748968.1\|), blast E-value=0.0000000000003, identity=97.83%
	553-663, BovGen_07682 normal cattle brain Bos taurus cDNA clone (gb\|CO879355.1\|), blast E-value=7.00649e-45, identity=96.4%
	553-663, BovGen_21853 normal cattle brain Bos taurus cDNA clone (gb\|CO893528.1\|), blast E-value=7.00649e-45, identity=96.4%
	553-663, 1372248 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN536167.1\|), blast E-value=7.00649e-45, identity=96.4%
	553-663, 1373784 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN537585.1\|), blast E-value=7.00649e-45, identity=96.4%

	1-671, gnl\|bosTau2\|chr15 (50691925-50691279)
	1-671, gnl\|Hg17\|chr11 (57000885-57001547)
	1-671, gnl\|Mm7\|chr2 (84715737-84715059)