Non-Coding RNA Search

Ss1.1-rnje04c_j18.5

Sequence:


               
               TTAGCAGCTGAGGGAAAAAAAAAAAAAAAAAAAGCAAGCTCCTTTAAACATGCATCAAGT
TCCNTAAAGGTACTGTGTTTCTTCGGTGAGCACTCGCCCCAGCACTTTAGCAGGATTCCC
CTCCGTCACAGTGCTGCTCAGCTCTGCTGCCCTTTCATTCATAGCTGGATCTTGGATTAT
CCCTTGATTGCAATAGAATGTTAACCAGCATAGCAGGTACAGTGGAAGTCTGTAGCAATG
AGATTCCTAATTTAGGATTGAAAATGAATTGAGGTTTCCGTAAACTGAGGAGAATTCCTG
TGTCTAACTCTTGGAAAATCAAGAATTTTCCAGTTTCCCAAACCTCAGAGAAGACAAGAA
AAAGTAGAGTGGAAAGAAGGTTTGATAACCGTGCAAAATATTTCAGTTTCCTCAAAATAT
GAGGACATCTGAGAGTATGATCTGGATTTACCAGATGTAACTAAGGCTAATTTAGCATGA
AAAAGTTTCAGTCATATATCATCTAATCTGTTCCATAAATGGCCTCATTATAGGACAGTG
AATGGACTAGCAAAATAATAGGGTGGGACCATTATAAAGAAAATAAATTATTAAAGATGT
CTATCATTTTCGTGCCATTGGTTTATGTGCATAGCAGAATTTTCTTTCTTTTTTGCCTGT
GAATTTGGTGCTTACTTAAGTGTTCACTGTTCTCTAAAGAGAGCAGTAGTATGGATGTGC
AGTTTCCATTTTTAACGTACTGTTCCATTTATACTTTTTTTCTGAGCAGATTGCTAATTG
TGCCAAATTTGTATGATGAATTTTGTAATGTGGAATAAGAATCATGATGGAACCAGTGCA
CATGGTTTTCTCCAAAACAAGCAGTCAAGACAGAACGTGAACCTCCAAATGAAAGGGCTG
ACCTATTTTCTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTAGCAGCTGAGGGAAAAAAAAAAAAAAAAAAAGCAAGCTCCTTTAAACATGCATCAAGT
TCCNTAAAGGTACTGTGTTTCTTCGGTGAGCACTCGCCCCAGCACTTTAGCAGGATTCCC
CTCCGTCACAGTGCTGCTCAGCTCTGCTGCCCTTTCATTCATAGCTGGATCTTGGATTAT
CCCTTGATTGCAATAGAATGTTAACCAGCATAGCAGGTACAGTGGAAGTCTGTAGCAATG
AGATTCCTAATTTAGGATTGAAAATGAATTGAGGTTTCCGTAAACTGAGGAGAATTCCTG
TGTCTAACTCTTGGAAAATCAAGAATTTTCCAGTTTCCCAAACCTCAGAGAAGACAAGAA
AAAGTAGAGTGGAAAGAAGGTTTGATAACCGTGCAAAATATTTCAGTTTCCTCAAAATAT
GAGGACATCTGAGAGTATGATCTGGATTTACCAGATGTAACTAAGGCTAATTTAGCATGA
AAAAGTTTCAGTCATATATCATCTAATCTGTTCCATAAATGGCCTCATTATAGGACAGTG
AATGGACTAGCAAAATAATAGGGTGGGACCATTATAAAGAAAATAAATTATTAAAGATGT
CTATCATTTTCGTGCCATTGGTTTATGTGCATAGCAGAATTTTCTTTCTTTTTTGCCTGT
GAATTTGGTGCTTACTTAAGTGTTCACTGTTCTCTAAAGAGAGCAGTAGTATGGATGTGC
AGTTTCCATTTTTAACGTACTGTTCCATTTATACTTTTTTTCTGAGCAGATTGCTAATTG
TGCCAAATTTGTATGATGAATTTTGTAATGTGGAATAAGAATCATGATGGAACCAGTGCA
CATGGTTTTCTCCAAAACAAGCAGTCAAGACAGAACGTGAACCTCCAAATGAAAGGGCTG
ACCTATTTTCTT

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

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

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               242-471, + strand, RNAz p=0.960056
               

               
               243-352, - strand, RNAz p=0.749231
               

               
               628-764, - strand, RNAz p=0.999643

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


               
               242-471, + strand, RNAz p=0.960056
               

               
               243-352, - strand, RNAz p=0.749231
               

               
               628-764, - strand, RNAz p=0.999643

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               248-471, DA265501 BRCAN2 Homo sapiens cDNA clone BRCAN2018749 5', mRNA 
(dbj|DA265501.1|), blast E-value=7e-17, identity=80.97% 
               

               
               248-471, DA457269 CTONG3 Homo sapiens cDNA clone CTONG3002803 5', mRNA 
(dbj|DA457269.1|), blast E-value=7e-17, identity=80.97% 
               

               
               301-471, 706171 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB451406.1|), 
blast E-value=8e-32, identity=86.86% 
               

               
               248-471, 17000532188730 GRN_ES Homo sapiens cDNA 5', mRNA sequence 
(gb|CN371717.1|), blast E-value=7e-17, identity=80.97% 
               

               
               248-471, 17000600006876 GRN_PREHEP Homo sapiens cDNA 5', mRNA sequence 
(gb|CN371718.1|), blast E-value=7e-17, identity=80.97% 
               

               
               248-471, 17000600011450 GRN_PREHEP Homo sapiens cDNA 5', mRNA sequence 
(gb|CN371719.1|), blast E-value=7e-17, identity=80.97%

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


               
               248-471, DA265501 BRCAN2 Homo sapiens cDNA clone BRCAN2018749 5', mRNA 
(dbj|DA265501.1|), blast E-value=7e-17, identity=80.97% 
               

               
               248-471, DA457269 CTONG3 Homo sapiens cDNA clone CTONG3002803 5', mRNA 
(dbj|DA457269.1|), blast E-value=7e-17, identity=80.97% 
               

               
               301-471, 706171 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB451406.1|), 
blast E-value=8e-32, identity=86.86% 
               

               
               248-471, 17000532188730 GRN_ES Homo sapiens cDNA 5', mRNA sequence 
(gb|CN371717.1|), blast E-value=7e-17, identity=80.97% 
               

               
               248-471, 17000600006876 GRN_PREHEP Homo sapiens cDNA 5', mRNA sequence 
(gb|CN371718.1|), blast E-value=7e-17, identity=80.97% 
               

               
               248-471, 17000600011450 GRN_PREHEP Homo sapiens cDNA 5', mRNA sequence 
(gb|CN371719.1|), blast E-value=7e-17, identity=80.97%

Aligned organism(s): 13 entry(ies)

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Aligned organism(s): 13 entry(ies)

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               132-912, gnl|bosTau2|chr5 (28315097-28314326)
               

               
               132-912, gnl|canFam2|chr10 (14536215-14537222)
               

               
               132-912, gnl|echTel1|scaffold_168420 (4562-3658)
               

               
               132-912, gnl|hg17|chr12 (68256040-68257040)
               

               
               132-912, gnl|Hg17|chr12 (68256274-68257126)
               

               
               132-912, gnl|loxAfr1|scaffold_51742 (12775-13692)
               

               
               132-912, gnl|mm7|chr10 (116580859-116580057)
               

               
               132-912, gnl|Mm7|chr10 (116580637-116579990)
               

               
               132-912, gnl|monDom2|scaffold_36 (420395-421370)
               

               
               132-912, gnl|oryCun1|scaffold_170165 (7344-8252)
               

               
               132-912, gnl|panTro1|chr10 (69805983-69806984)
               

               
               132-912, gnl|rheMac2|chr11 (66564636-66565639)
               

               
               132-912, gnl|rn3|chr7 (56434210-56433333)

Aligned organism(s): 13 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


               
               132-912, gnl|bosTau2|chr5 (28315097-28314326)
               

               
               132-912, gnl|canFam2|chr10 (14536215-14537222)
               

               
               132-912, gnl|echTel1|scaffold_168420 (4562-3658)
               

               
               132-912, gnl|hg17|chr12 (68256040-68257040)
               

               
               132-912, gnl|Hg17|chr12 (68256274-68257126)
               

               
               132-912, gnl|loxAfr1|scaffold_51742 (12775-13692)
               

               
               132-912, gnl|mm7|chr10 (116580859-116580057)
               

               
               132-912, gnl|Mm7|chr10 (116580637-116579990)
               

               
               132-912, gnl|monDom2|scaffold_36 (420395-421370)
               

               
               132-912, gnl|oryCun1|scaffold_170165 (7344-8252)
               

               
               132-912, gnl|panTro1|chr10 (69805983-69806984)
               

               
               132-912, gnl|rheMac2|chr11 (66564636-66565639)
               

               
               132-912, gnl|rn3|chr7 (56434210-56433333)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

Help | Less info


               
               nje (0.16592)

Expressed library(ies): 1 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


               
               nje (0.16592)

	242-471, + strand, RNAz p=0.960056
	243-352, - strand, RNAz p=0.749231
	628-764, - strand, RNAz p=0.999643

	248-471, DA265501 BRCAN2 Homo sapiens cDNA clone BRCAN2018749 5', mRNA (dbj\|DA265501.1\|), blast E-value=7e-17, identity=80.97%
	248-471, DA457269 CTONG3 Homo sapiens cDNA clone CTONG3002803 5', mRNA (dbj\|DA457269.1\|), blast E-value=7e-17, identity=80.97%
	301-471, 706171 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB451406.1\|), blast E-value=8e-32, identity=86.86%
	248-471, 17000532188730 GRN_ES Homo sapiens cDNA 5', mRNA sequence (gb\|CN371717.1\|), blast E-value=7e-17, identity=80.97%
	248-471, 17000600006876 GRN_PREHEP Homo sapiens cDNA 5', mRNA sequence (gb\|CN371718.1\|), blast E-value=7e-17, identity=80.97%
	248-471, 17000600011450 GRN_PREHEP Homo sapiens cDNA 5', mRNA sequence (gb\|CN371719.1\|), blast E-value=7e-17, identity=80.97%

	132-912, gnl\|bosTau2\|chr5 (28315097-28314326)
	132-912, gnl\|canFam2\|chr10 (14536215-14537222)
	132-912, gnl\|echTel1\|scaffold_168420 (4562-3658)
	132-912, gnl\|hg17\|chr12 (68256040-68257040)
	132-912, gnl\|Hg17\|chr12 (68256274-68257126)
	132-912, gnl\|loxAfr1\|scaffold_51742 (12775-13692)
	132-912, gnl\|mm7\|chr10 (116580859-116580057)
	132-912, gnl\|Mm7\|chr10 (116580637-116579990)
	132-912, gnl\|monDom2\|scaffold_36 (420395-421370)
	132-912, gnl\|oryCun1\|scaffold_170165 (7344-8252)
	132-912, gnl\|panTro1\|chr10 (69805983-69806984)
	132-912, gnl\|rheMac2\|chr11 (66564636-66565639)
	132-912, gnl\|rn3\|chr7 (56434210-56433333)