Non-Coding RNA Search

Ss1.1-Pig4-TMW8039G22.3

Sequence:


               
               TTTTTTTTTTTTTGGTTTTTAAGCTTGTGTATTTTCTTTCCTTGCTTCCTGTCACCTTGG
GATCTCCTGAGTATAGGCTTTTCAGCCCCTGGGCAGTGTCCTTGCATTGTTTTTTTGACA
CTCCACCTGGGCTTCTCTCTGTGCATTTGTGTCTGGCCTGGAGAAAGCAGGTCTGACCCC
TCTTATAGCTTAGTGTTATTCTGGCATTTGGTTAAGCTGGCTTAATCTGTTTAATGTTAT
CAGTGCATTTAAAATAGGGGCATTGAAGTTCACTCCCACCACCAGGGCTTTTTTGGGGGT
GCCTGGGCCTTAAAAACACTAGCCCAACTCCAGTTCTCAGATTGCTGCCTGGAGTTCTTG
CTCTTGGCTGCAGGCCCAGGCCCCAAGGTGCCTCCTTCCTAGGGTCACAAAGAGCAGAGA
GGAAGAGGAATAGCAACTCAGGGCCTGGAGGTTGTGGGGGAATCTATTCTTAGGGACTGG
ATGCCTCTGCTTATCTAGTGCTCACTGCCCCTGTCCCTCCCTAAGAGGCTCCACAGGGCT
TAGGTGTGGGACTGAGCGTGTAGAAGTGACTTGCCCTTCTCTCTTTTTCACTGAACAGCT
TGCTCTAGGGGGGGAGGAAGAGGAGAGATCTAGAGTGGGCGCAGGGGGGTGGGGGTGTCA
GGGAGGCAAGTGTGTTGTGTTACTGTGTCAATAAACTGATTTAAAGTTAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTTTTTTTTTTTGGTTTTTAAGCTTGTGTATTTTCTTTCCTTGCTTCCTGTCACCTTGG
GATCTCCTGAGTATAGGCTTTTCAGCCCCTGGGCAGTGTCCTTGCATTGTTTTTTTGACA
CTCCACCTGGGCTTCTCTCTGTGCATTTGTGTCTGGCCTGGAGAAAGCAGGTCTGACCCC
TCTTATAGCTTAGTGTTATTCTGGCATTTGGTTAAGCTGGCTTAATCTGTTTAATGTTAT
CAGTGCATTTAAAATAGGGGCATTGAAGTTCACTCCCACCACCAGGGCTTTTTTGGGGGT
GCCTGGGCCTTAAAAACACTAGCCCAACTCCAGTTCTCAGATTGCTGCCTGGAGTTCTTG
CTCTTGGCTGCAGGCCCAGGCCCCAAGGTGCCTCCTTCCTAGGGTCACAAAGAGCAGAGA
GGAAGAGGAATAGCAACTCAGGGCCTGGAGGTTGTGGGGGAATCTATTCTTAGGGACTGG
ATGCCTCTGCTTATCTAGTGCTCACTGCCCCTGTCCCTCCCTAAGAGGCTCCACAGGGCT
TAGGTGTGGGACTGAGCGTGTAGAAGTGACTTGCCCTTCTCTCTTTTTCACTGAACAGCT
TGCTCTAGGGGGGGAGGAAGAGGAGAGATCTAGAGTGGGCGCAGGGGGGTGGGGGTGTCA
GGGAGGCAAGTGTGTTGTGTTACTGTGTCAATAAACTGATTTAAAGTTAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

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               275-461, - strand, RNAz p=0.999699

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


               
               275-461, - strand, RNAz p=0.999699

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               375-513, - strand, RNAmicro p=0.918754

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


               
               375-513, - strand, RNAmicro p=0.918754

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               278-461, 1248812 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN512717.1|), 
blast E-value=0, identity=90.96% 
               

               
               278-461, 1359717 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN531747.1|), 
blast E-value=0, identity=90.96% 
               

               
               278-461, 1361253 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN533139.1|), 
blast E-value=0, identity=90.96% 
               

               
               275-461, EST-AR178C10 Infected Porcine Peripheral Blood Cell cDNA library 
(gb|DV227005.1|), blast E-value=0, identity=100% 
               

               
               278-461, LB02911.CR_B05 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV917816.1|), 
blast E-value=0, identity=90.96% 
               

               
               278-461, 001015BEMN046255HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY048558.1|), blast E-value=0, identity=90.96%

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


               
               278-461, 1248812 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN512717.1|), 
blast E-value=0, identity=90.96% 
               

               
               278-461, 1359717 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN531747.1|), 
blast E-value=0, identity=90.96% 
               

               
               278-461, 1361253 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN533139.1|), 
blast E-value=0, identity=90.96% 
               

               
               275-461, EST-AR178C10 Infected Porcine Peripheral Blood Cell cDNA library 
(gb|DV227005.1|), blast E-value=0, identity=100% 
               

               
               278-461, LB02911.CR_B05 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV917816.1|), 
blast E-value=0, identity=90.96% 
               

               
               278-461, 001015BEMN046255HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY048558.1|), blast E-value=0, identity=90.96%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               4-708, gnl|bosTau2|chr10 (30594709-30593982)
               

               
               4-708, gnl|Hg17|chr15 (62767566-62766829)
               

               
               4-708, gnl|Mm7|chr9 (65719251-65719938)

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


               
               4-708, gnl|bosTau2|chr10 (30594709-30593982)
               

               
               4-708, gnl|Hg17|chr15 (62767566-62766829)
               

               
               4-708, gnl|Mm7|chr9 (65719251-65719938)

Expressed library(ies): 15 entry(ies)

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Expressed library(ies): 15 entry(ies)

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               fce (0.543183)
               

               
               ece (0.229305)
               

               
               jca (0.22792)
               

               
               fcc (0.197785)
               

               
               ton (0.1755)
               

               
               cag (0.151194)
               

               
               hyp (0.142837)
               

               
               cst (0.140036)
               

               
               che (0.136314)
               

               
               nmm (0.132802)
               

               
               cov (0.132153)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               ebs (0.118301)
               

               
               med (0.116252)

Expressed library(ies): 15 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


               
               fce (0.543183)
               

               
               ece (0.229305)
               

               
               jca (0.22792)
               

               
               fcc (0.197785)
               

               
               ton (0.1755)
               

               
               cag (0.151194)
               

               
               hyp (0.142837)
               

               
               cst (0.140036)
               

               
               che (0.136314)
               

               
               nmm (0.132802)
               

               
               cov (0.132153)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               ebs (0.118301)
               

               
               med (0.116252)

	278-461, 1248812 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN512717.1\|), blast E-value=0, identity=90.96%
	278-461, 1359717 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN531747.1\|), blast E-value=0, identity=90.96%
	278-461, 1361253 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN533139.1\|), blast E-value=0, identity=90.96%
	275-461, EST-AR178C10 Infected Porcine Peripheral Blood Cell cDNA library (gb\|DV227005.1\|), blast E-value=0, identity=100%
	278-461, LB02911.CR_B05 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV917816.1\|), blast E-value=0, identity=90.96%
	278-461, 001015BEMN046255HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY048558.1\|), blast E-value=0, identity=90.96%

	4-708, gnl\|bosTau2\|chr10 (30594709-30593982)
	4-708, gnl\|Hg17\|chr15 (62767566-62766829)
	4-708, gnl\|Mm7\|chr9 (65719251-65719938)

	fce (0.543183)
	ece (0.229305)
	jca (0.22792)
	fcc (0.197785)
	ton (0.1755)
	cag (0.151194)
	hyp (0.142837)
	cst (0.140036)
	che (0.136314)
	nmm (0.132802)
	cov (0.132153)
	ese (0.126502)
	eep (0.122564)
	ebs (0.118301)
	med (0.116252)