Non-Coding RNA Search

Ss1.1-rebs28c_k12.5

Sequence:


               
               GGCCAGGGCCTGGGTGGGGGAACATCAGAAGATCACGAGCTGGATGTTCACCTGCAGGTG
CCAAAGAGAACAGGCCCGCTGGGACAAGGGGCTGCCCGACTCTGATCTGAGGGTCGGGAT
CCCGGGATTCCGCCACTGCCCCAGCGCTCTCTTGCTGGTTGCCGGCAAGGGGGCATGGAG
CCTCTCTACCCCTTCTGTTGCCAAATAGCAAAGGGCCGGGCATAGAGGAAGATGACCCTG
ATCCAAGCCTGCCCGCCCGGGCCTCTGGCGTGTGTGTCTGTGTACCCGTGTGTGCATGGC
GGTCTGTGCGTGCGTGTCTGTGTCCTGGGGCTGTGTGTCCTTGCGCTCCTGCTCCTCAGC
TCTCCACCCTGGGTTGCCTCTTTCCTGTGGGCCTCTGTCTTCTGGGAGTTAGGCAGGCTT
TCTGATCCCAAGGGATGTAGAGGGGTCCCCAGGTTGCACAGGCACAGGATGGGGTTTGGT
AGCCAGAGAGGGGTGGCCCTGGGGAGAGGATTCCTTTTTGTGCCAAATCCCTAAGTGCCA
TTTGGGGGCCACGTGTGCAGCACGACCATCTCCCAGCCTGGGGCAGGGATCCAGGCATCT
GCTTGAGCCCCAGTGCACCTTGCACTTGAACTATCTGGGGTTTGGTGGGCAGAGGCTCAA
GAGTTTCCTGAGTTCCCTAGCTGGTGTCCTGCGACATGGTCTGCCTCAGGGCGGGGGTAG
CATGGGGTCCCTCTGAGGACCCAGATTCTGGTACTA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGCCAGGGCCTGGGTGGGGGAACATCAGAAGATCACGAGCTGGATGTTCACCTGCAGGTG
CCAAAGAGAACAGGCCCGCTGGGACAAGGGGCTGCCCGACTCTGATCTGAGGGTCGGGAT
CCCGGGATTCCGCCACTGCCCCAGCGCTCTCTTGCTGGTTGCCGGCAAGGGGGCATGGAG
CCTCTCTACCCCTTCTGTTGCCAAATAGCAAAGGGCCGGGCATAGAGGAAGATGACCCTG
ATCCAAGCCTGCCCGCCCGGGCCTCTGGCGTGTGTGTCTGTGTACCCGTGTGTGCATGGC
GGTCTGTGCGTGCGTGTCTGTGTCCTGGGGCTGTGTGTCCTTGCGCTCCTGCTCCTCAGC
TCTCCACCCTGGGTTGCCTCTTTCCTGTGGGCCTCTGTCTTCTGGGAGTTAGGCAGGCTT
TCTGATCCCAAGGGATGTAGAGGGGTCCCCAGGTTGCACAGGCACAGGATGGGGTTTGGT
AGCCAGAGAGGGGTGGCCCTGGGGAGAGGATTCCTTTTTGTGCCAAATCCCTAAGTGCCA
TTTGGGGGCCACGTGTGCAGCACGACCATCTCCCAGCCTGGGGCAGGGATCCAGGCATCT
GCTTGAGCCCCAGTGCACCTTGCACTTGAACTATCTGGGGTTTGGTGGGCAGAGGCTCAA
GAGTTTCCTGAGTTCCCTAGCTGGTGTCCTGCGACATGGTCTGCCTCAGGGCGGGGGTAG
CATGGGGTCCCTCTGAGGACCCAGATTCTGGTACTA

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

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

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               157-287, + strand, RNAz p=0.910474
               

               
               361-478, - strand, RNAz p=0.980495
               

               
               632-747, - strand, RNAz p=0.961294

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


               
               157-287, + strand, RNAz p=0.910474
               

               
               361-478, - strand, RNAz p=0.980495
               

               
               632-747, - strand, RNAz p=0.961294

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               449-610, + strand, RNAmicro p=0.992332
               

               
               642-753, + strand, RNAmicro p=0.990551
               

               
               427-530, - strand, RNAmicro p=0.904281

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


               
               449-610, + strand, RNAmicro p=0.992332
               

               
               642-753, + strand, RNAmicro p=0.990551
               

               
               427-530, - strand, RNAmicro p=0.904281

Similar Transcript(s): 4 entry(ies)

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Similar Transcript(s): 4 entry(ies)

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               361-462, 225459 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BF076061.1|), 
blast E-value=1e-16, identity=87.38% 
               

               
               361-462, 226249 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BF076642.1|), 
blast E-value=1e-16, identity=87.38% 
               

               
               361-462, 268030 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF602653.1|), 
blast E-value=1e-16, identity=87.38% 
               

               
               361-462, 270492 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF604595.1|), 
blast E-value=1e-16, identity=87.38%

Similar Transcript(s): 4 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


               
               361-462, 225459 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BF076061.1|), 
blast E-value=1e-16, identity=87.38% 
               

               
               361-462, 226249 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BF076642.1|), 
blast E-value=1e-16, identity=87.38% 
               

               
               361-462, 268030 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF602653.1|), 
blast E-value=1e-16, identity=87.38% 
               

               
               361-462, 270492 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF604595.1|), 
blast E-value=1e-16, identity=87.38%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_020983, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_020983, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               23-756, gnl|bosTau2|chr5 (26328561-26329284)
               

               
               23-756, gnl|Hg17|chr12 (47447878-47447137)
               

               
               23-756, gnl|Mm7|chr15 (98577931-98577134)

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


               
               23-756, gnl|bosTau2|chr5 (26328561-26329284)
               

               
               23-756, gnl|Hg17|chr12 (47447878-47447137)
               

               
               23-756, gnl|Mm7|chr15 (98577931-98577134)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               ebs (0.118301)

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


               
               ebs (0.118301)

	157-287, + strand, RNAz p=0.910474
	361-478, - strand, RNAz p=0.980495
	632-747, - strand, RNAz p=0.961294

	449-610, + strand, RNAmicro p=0.992332
	642-753, + strand, RNAmicro p=0.990551
	427-530, - strand, RNAmicro p=0.904281

	361-462, 225459 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BF076061.1\|), blast E-value=1e-16, identity=87.38%
	361-462, 226249 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BF076642.1\|), blast E-value=1e-16, identity=87.38%
	361-462, 268030 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BF602653.1\|), blast E-value=1e-16, identity=87.38%
	361-462, 270492 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BF604595.1\|), blast E-value=1e-16, identity=87.38%

	23-756, gnl\|bosTau2\|chr5 (26328561-26329284)
	23-756, gnl\|Hg17\|chr12 (47447878-47447137)
	23-756, gnl\|Mm7\|chr15 (98577931-98577134)