Non-Coding RNA Search

Ss1.1-Pig1-16N11.3

Sequence:


               
               TCCTAAGTTCCCAGGCAAGTCATGCCAGCGTTGCCTCCCTGTCCTGGGCAGGGGCCACTT
ATTATTTAATTTATTTTTAATTTATAATTTATTCAAATTGGATTGCCTTGGTAACCTCCC
AAACCTGATAATTGGCATTGCCCCCTCCCCCTTTCCCACTCTCAGATATTGCTCCAACCT
CAGGAGTTGAAGAGGCTGTTATGGGGGCTGTCGGAGAACTGCTGTCCCTCAGCTGAGAGC
AGAGAAGTTATCCCAGAAGGACTGAGTCACTAGCCAAAAACTCAGCTTCCTCTGTCCCTC
CCTATTCCTTTCACTTCCCCTACCCTCTCACCTCTCTCTGAAAGCCAACTTGTGTGTGTG
TGTGTGTGTGTGTGTGTGTGTGTGTGGTATGTGTGTGATAAACAGCGTTTATGGATGTGT
GCACACACAGGGGTTAACCACCCCTCATCTAGGACTCCAGACTCCCAGCTGTCCCTCTCT
TCTTGTCTGTATCTCCTTGCTTTGGGGTCCTGACTGAGGAAGGTATTCAGGGGGCAGAGT
CAGGGCCAAGGAATGGAGTGCCTCCTCTCATCTGGCCAGACTCTGACCCACCTACCTCAG
CTGGGGCGAGGGGCACCCCTTAAACTCAGTCATGTAGTTACCAACTACCCCATTCTCCAC
TCCAGACTCTGAACCAGCCTTAGCTCTGATGCCTGGGGCTGGGCTGAGGGGAACAAGCAT
TTGCTGAAACTTGAAAAAAAAACAGGAAAAAATTGTACCTGGTACTTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCCTAAGTTCCCAGGCAAGTCATGCCAGCGTTGCCTCCCTGTCCTGGGCAGGGGCCACTT
ATTATTTAATTTATTTTTAATTTATAATTTATTCAAATTGGATTGCCTTGGTAACCTCCC
AAACCTGATAATTGGCATTGCCCCCTCCCCCTTTCCCACTCTCAGATATTGCTCCAACCT
CAGGAGTTGAAGAGGCTGTTATGGGGGCTGTCGGAGAACTGCTGTCCCTCAGCTGAGAGC
AGAGAAGTTATCCCAGAAGGACTGAGTCACTAGCCAAAAACTCAGCTTCCTCTGTCCCTC
CCTATTCCTTTCACTTCCCCTACCCTCTCACCTCTCTCTGAAAGCCAACTTGTGTGTGTG
TGTGTGTGTGTGTGTGTGTGTGTGTGGTATGTGTGTGATAAACAGCGTTTATGGATGTGT
GCACACACAGGGGTTAACCACCCCTCATCTAGGACTCCAGACTCCCAGCTGTCCCTCTCT
TCTTGTCTGTATCTCCTTGCTTTGGGGTCCTGACTGAGGAAGGTATTCAGGGGGCAGAGT
CAGGGCCAAGGAATGGAGTGCCTCCTCTCATCTGGCCAGACTCTGACCCACCTACCTCAG
CTGGGGCGAGGGGCACCCCTTAAACTCAGTCATGTAGTTACCAACTACCCCATTCTCCAC
TCCAGACTCTGAACCAGCCTTAGCTCTGATGCCTGGGGCTGGGCTGAGGGGAACAAGCAT
TTGCTGAAACTTGAAAAAAAAACAGGAAAAAATTGTACCTGGTACTTT

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

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

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               1-316, - strand, RNAz p=0.981494
               

               
               474-768, - strand, RNAz p=0.99886

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


               
               1-316, - strand, RNAz p=0.981494
               

               
               474-768, - strand, RNAz p=0.99886

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               542-662, + strand, RNAmicro p=1
               

               
               551-657, - strand, RNAmicro p=0.999948
               

               
               221-351, - strand, RNAmicro p=0.974162

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


               
               542-662, + strand, RNAmicro p=1
               

               
               551-657, - strand, RNAmicro p=0.999948
               

               
               221-351, - strand, RNAmicro p=0.974162

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               487-733, DB567500 RIKEN full-length enriched human cDNA library, 
(dbj|DB567500.1|), blast E-value=0, identity=91.09% 
               

               
               487-733, 213849 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BE808602.1|), 
blast E-value=0, identity=91.09% 
               

               
               487-733, 455308 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI541523.1|), 
blast E-value=0, identity=91.09% 
               

               
               487-733, BovGen_10465 normal cattle brain Bos taurus cDNA clone 
(gb|CO882140.1|), blast E-value=0, identity=91.09% 
               

               
               487-733, 010126BEMN053294HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY192735.1|), blast E-value=0, identity=91.09% 
               

               
               474-733, PADT0811008_F07F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB414157.1|), blast E-value=0, identity=99.62%

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


               
               487-733, DB567500 RIKEN full-length enriched human cDNA library, 
(dbj|DB567500.1|), blast E-value=0, identity=91.09% 
               

               
               487-733, 213849 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BE808602.1|), 
blast E-value=0, identity=91.09% 
               

               
               487-733, 455308 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI541523.1|), 
blast E-value=0, identity=91.09% 
               

               
               487-733, BovGen_10465 normal cattle brain Bos taurus cDNA clone 
(gb|CO882140.1|), blast E-value=0, identity=91.09% 
               

               
               487-733, 010126BEMN053294HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY192735.1|), blast E-value=0, identity=91.09% 
               

               
               474-733, PADT0811008_F07F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB414157.1|), blast E-value=0, identity=99.62%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-768, gnl|bosTau2|chr8 (27891881-27891123)
               

               
               1-768, gnl|Hg17|chr9 (35094950-35094173)
               

               
               1-768, gnl|Mm7|chr4 (43047082-43046273)

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


               
               1-768, gnl|bosTau2|chr8 (27891881-27891123)
               

               
               1-768, gnl|Hg17|chr9 (35094950-35094173)
               

               
               1-768, gnl|Mm7|chr4 (43047082-43046273)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               cov (0.264306)
               

               
               nbm (0.198649)
               

               
               cje (0.165235)
               

               
               lnt (0.142308)
               

               
               nca (0.136874)
               

               
               eje (0.0988338)

Expressed library(ies): 6 entry(ies)

Help | Less info

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


               
               cov (0.264306)
               

               
               nbm (0.198649)
               

               
               cje (0.165235)
               

               
               lnt (0.142308)
               

               
               nca (0.136874)
               

               
               eje (0.0988338)

	1-316, - strand, RNAz p=0.981494
	474-768, - strand, RNAz p=0.99886

	542-662, + strand, RNAmicro p=1
	551-657, - strand, RNAmicro p=0.999948
	221-351, - strand, RNAmicro p=0.974162

	487-733, DB567500 RIKEN full-length enriched human cDNA library, (dbj\|DB567500.1\|), blast E-value=0, identity=91.09%
	487-733, 213849 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE808602.1\|), blast E-value=0, identity=91.09%
	487-733, 455308 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI541523.1\|), blast E-value=0, identity=91.09%
	487-733, BovGen_10465 normal cattle brain Bos taurus cDNA clone (gb\|CO882140.1\|), blast E-value=0, identity=91.09%
	487-733, 010126BEMN053294HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY192735.1\|), blast E-value=0, identity=91.09%
	474-733, PADT0811008_F07F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB414157.1\|), blast E-value=0, identity=99.62%

	1-768, gnl\|bosTau2\|chr8 (27891881-27891123)
	1-768, gnl\|Hg17\|chr9 (35094950-35094173)
	1-768, gnl\|Mm7\|chr4 (43047082-43046273)

	cov (0.264306)
	nbm (0.198649)
	cje (0.165235)
	lnt (0.142308)
	nca (0.136874)
	eje (0.0988338)