Non-Coding RNA Search

Ss1.1-Lym1-jns09_F03.f.5

Sequence:


               
               ACCTGTGCACATTGTGGCCTGCGCGCTGGACCCCATGCTGGACGACTCGGTCATGTTCGC
TAGGCGGCTACGCAGCCTGGGCCAGCCCGTGACGCTGCACGTGGTGGAGGACCTGCCGCA
CGGCTTCCTGAGCCTGGCGGCGCTGTGCCGGGAGACCCGGCAGGCCGCGGCGCTGTGCGT
GGACCGCATTCGCTTTATCCTCAATCCGCCGGGCCCTGCCACACCGGCTGGGCCCACCAC
GCCGCCAGTCTGAGCAGTGGGACAAGGCCCACCAGGCGGGGAGAGGGGGGCTGGGGGAAA
GCAACACTAAAGGCCTCTTGTACCCACCTGCCCAAGGTTCCGTGGTGAATGCGCCTTGGG
AAGGGCGGAGGGGACCACAGCCAGCGGCCCCTGTCCCATCCGGCCCCTCCCTCGGAGCGG
GCAGGAAGGGACAGGCTATGCTTTAGGTCAAGGGTACAGCAAAAGGGGCGGGGTAGGGAC
CCCTGAAAGCTAAGACCCTGGCCTGGGGTGGGGGGGCACACACAAACCAGTCCCCAAGAC
AGTTAGACCTGCACTCCACCACTGACTTCTACTGCTGCTGCAACCGCCTCAGGGGCAGGG
CTTGGCCCTACCTTGCAGGTCGGTTTGGTTTTGTTTGTTGTAAATAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACCTGTGCACATTGTGGCCTGCGCGCTGGACCCCATGCTGGACGACTCGGTCATGTTCGC
TAGGCGGCTACGCAGCCTGGGCCAGCCCGTGACGCTGCACGTGGTGGAGGACCTGCCGCA
CGGCTTCCTGAGCCTGGCGGCGCTGTGCCGGGAGACCCGGCAGGCCGCGGCGCTGTGCGT
GGACCGCATTCGCTTTATCCTCAATCCGCCGGGCCCTGCCACACCGGCTGGGCCCACCAC
GCCGCCAGTCTGAGCAGTGGGACAAGGCCCACCAGGCGGGGAGAGGGGGGCTGGGGGAAA
GCAACACTAAAGGCCTCTTGTACCCACCTGCCCAAGGTTCCGTGGTGAATGCGCCTTGGG
AAGGGCGGAGGGGACCACAGCCAGCGGCCCCTGTCCCATCCGGCCCCTCCCTCGGAGCGG
GCAGGAAGGGACAGGCTATGCTTTAGGTCAAGGGTACAGCAAAAGGGGCGGGGTAGGGAC
CCCTGAAAGCTAAGACCCTGGCCTGGGGTGGGGGGGCACACACAAACCAGTCCCCAAGAC
AGTTAGACCTGCACTCCACCACTGACTTCTACTGCTGCTGCAACCGCCTCAGGGGCAGGG
CTTGGCCCTACCTTGCAGGTCGGTTTGGTTTTGTTTGTTGTAAATAAA

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

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

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               321-512, + strand, RNAz p=0.999986

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


               
               321-512, + strand, RNAz p=0.999986

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               321-512, PADT0811001_E18F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB411313.1|), blast E-value=0, identity=100% 
               

               
               321-512, PADT0811002_P19F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB412165.1|), blast E-value=0, identity=99.48% 
               

               
               321-512, PADT0811011_N03F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB415892.1|), blast E-value=0, identity=100% 
               

               
               321-512, PADT0811011_P20F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB415969.1|), blast E-value=0, identity=100% 
               

               
               321-512, PADT0811016_B04F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB417761.1|), blast E-value=0, identity=100% 
               

               
               321-512, PADT0811027_I21F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB421987.1|), blast E-value=0, identity=100%

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


               
               321-512, PADT0811001_E18F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB411313.1|), blast E-value=0, identity=100% 
               

               
               321-512, PADT0811002_P19F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB412165.1|), blast E-value=0, identity=99.48% 
               

               
               321-512, PADT0811011_N03F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB415892.1|), blast E-value=0, identity=100% 
               

               
               321-512, PADT0811011_P20F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB415969.1|), blast E-value=0, identity=100% 
               

               
               321-512, PADT0811016_B04F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB417761.1|), blast E-value=0, identity=100% 
               

               
               321-512, PADT0811027_I21F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB421987.1|), blast E-value=0, identity=100%

Aligned organism(s): 5 entry(ies)

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Aligned organism(s): 5 entry(ies)

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               16-215, gnl|bosTau2|chr18 (45081587-45081387)
               

               
               16-215, gnl|Hg17|chr19 (47598068-47597867)
               

               
               16-215, gnl|Mm7|chr7 (22169980-22169777)
               


               
               241-648, gnl|bosTau2|chr18 (45081389-45080975)
               

               
               241-648, gnl|Hg17|chr19 (47597869-47597518)

Aligned organism(s): 5 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


               
               16-215, gnl|bosTau2|chr18 (45081587-45081387)
               

               
               16-215, gnl|Hg17|chr19 (47598068-47597867)
               

               
               16-215, gnl|Mm7|chr7 (22169980-22169777)
               


               
               241-648, gnl|bosTau2|chr18 (45081389-45080975)
               

               
               241-648, gnl|Hg17|chr19 (47597869-47597518)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               med (0.232504)
               

               
               cly (0.120642)
               

               
               jca (0.11396)

Expressed library(ies): 3 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


               
               med (0.232504)
               

               
               cly (0.120642)
               

               
               jca (0.11396)

	321-512, PADT0811001_E18F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB411313.1\|), blast E-value=0, identity=100%
	321-512, PADT0811002_P19F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB412165.1\|), blast E-value=0, identity=99.48%
	321-512, PADT0811011_N03F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB415892.1\|), blast E-value=0, identity=100%
	321-512, PADT0811011_P20F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB415969.1\|), blast E-value=0, identity=100%
	321-512, PADT0811016_B04F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB417761.1\|), blast E-value=0, identity=100%
	321-512, PADT0811027_I21F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB421987.1\|), blast E-value=0, identity=100%

	16-215, gnl\|bosTau2\|chr18 (45081587-45081387)
	16-215, gnl\|Hg17\|chr19 (47598068-47597867)
	16-215, gnl\|Mm7\|chr7 (22169980-22169777)

	241-648, gnl\|bosTau2\|chr18 (45081389-45080975)
	241-648, gnl\|Hg17\|chr19 (47597869-47597518)