Non-Coding RNA Search

Ss1.1-Pig2-19G03.5

Sequence:


               
               TCATTAACGCCCGGAGACGCATCGTGCAGCCCATGATCGATCTATCCAACCGCACAGCAG
GCCAGAGTGCAGTCTTCAGTCCAGAGAGCCAGCCCATGGGGGGCTACACGGAGACTCTAC
CACATGGGACTGTCAGGCCTCCAGGATCAATGGGCATGAGTTTGAACTTAGACGGAGAGT
GGCATTATCCGTAGAGGCCGGATTCAGGAGAAGCACCCCAAGCTCTGGACTGTGACCAGC
AGGCTCATACCTGCTCCCTCGACGCCTGGCCCTCTGGCTTCAGGACCCCACCTCCTACGC
ACCCCCCCAACTCAACGCCTACCTCCCTGGGGCCCTGCCTGGACGTGAGGGGCCTGAGTG
CCCCCTGGAGGGTCTCTCAAGGACAAAGACAAGGCCTCCAGGCCCTGCACCACCCCCCCT
TTTGCTCTAAGCTCTGCCCAGAACCCAAGCTGACACCCAGACTGGGTCTTCAGAAGATGG
GGGCTGGGGCTCCCCAGCCCCCCAGGGCAGAAAAGGGGTTGGGGGTGGGCTGGGGCCGTC
AGGGAAGGAGGGTTATCTGGATCCGACACTGGGGGAGGTTCCCTTCATCCTCCTGGGCCA
CCCCCTCCCCTCCCCCACTTCCCTTCTTTCTTGTCTTCTACCTTTTTTTAATGATAAAGT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCATTAACGCCCGGAGACGCATCGTGCAGCCCATGATCGATCTATCCAACCGCACAGCAG
GCCAGAGTGCAGTCTTCAGTCCAGAGAGCCAGCCCATGGGGGGCTACACGGAGACTCTAC
CACATGGGACTGTCAGGCCTCCAGGATCAATGGGCATGAGTTTGAACTTAGACGGAGAGT
GGCATTATCCGTAGAGGCCGGATTCAGGAGAAGCACCCCAAGCTCTGGACTGTGACCAGC
AGGCTCATACCTGCTCCCTCGACGCCTGGCCCTCTGGCTTCAGGACCCCACCTCCTACGC
ACCCCCCCAACTCAACGCCTACCTCCCTGGGGCCCTGCCTGGACGTGAGGGGCCTGAGTG
CCCCCTGGAGGGTCTCTCAAGGACAAAGACAAGGCCTCCAGGCCCTGCACCACCCCCCCT
TTTGCTCTAAGCTCTGCCCAGAACCCAAGCTGACACCCAGACTGGGTCTTCAGAAGATGG
GGGCTGGGGCTCCCCAGCCCCCCAGGGCAGAAAAGGGGTTGGGGGTGGGCTGGGGCCGTC
AGGGAAGGAGGGTTATCTGGATCCGACACTGGGGGAGGTTCCCTTCATCCTCCTGGGCCA
CCCCCTCCCCTCCCCCACTTCCCTTCTTTCTTGTCTTCTACCTTTTTTTAATGATAAAGT

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

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

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               345-649, + strand, RNAz p=0.996645
               

               
               347-649, - strand, RNAz p=0.999871

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


               
               345-649, + strand, RNAz p=0.996645
               

               
               347-649, - strand, RNAz p=0.999871

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               420-512, + strand, RNAmicro p=0.939844

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


               
               420-512, + strand, RNAmicro p=0.939844

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               499-593, 86510 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW446616.1|), 
blast E-value=6e-21, identity=89.47% 
               

               
               499-411, 145843 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE236862.1|), 
blast E-value=0.000000000000006, identity=92.31% 
               

               
               499-411, 145844 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE236863.1|), 
blast E-value=0.000000000000006, identity=92.31% 
               

               
               499-411, 1182133 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN282098.1|), 
blast E-value=0.000000000000006, identity=92.31% 
               

               
               499-411, 1182474 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN282414.1|), 
blast E-value=0.000000000000006, identity=92.31% 
               

               
               499-411, 1183669 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN283467.1|), 
blast E-value=0.000000000000006, identity=92.31%

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


               
               499-593, 86510 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW446616.1|), 
blast E-value=6e-21, identity=89.47% 
               

               
               499-411, 145843 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE236862.1|), 
blast E-value=0.000000000000006, identity=92.31% 
               

               
               499-411, 145844 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE236863.1|), 
blast E-value=0.000000000000006, identity=92.31% 
               

               
               499-411, 1182133 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN282098.1|), 
blast E-value=0.000000000000006, identity=92.31% 
               

               
               499-411, 1182474 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN282414.1|), 
blast E-value=0.000000000000006, identity=92.31% 
               

               
               499-411, 1183669 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN283467.1|), 
blast E-value=0.000000000000006, identity=92.31%

Aligned organism(s): 10 entry(ies)

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Aligned organism(s): 10 entry(ies)

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               287-649, gnl|bosTau2|chr18 (47371106-47370744)
               

               
               287-649, gnl|canFam2|chr1 (111488570-111488053)
               

               
               287-649, gnl|hg17|chr19 (52598149-52598647)
               

               
               287-649, gnl|Hg17|chr19 (52598567-52598223)
               

               
               287-649, gnl|mm7|chr7 (13948946-13948438)
               

               
               287-649, gnl|Mm7|chr7 (13948519-13948878)
               

               
               287-649, gnl|oryCun1|scaffold_174505 (51287-51764)
               

               
               287-649, gnl|panTro1|chr20 (49909798-49910296)
               

               
               287-649, gnl|rheMac2|chr19 (53738346-53738831)
               

               
               287-649, gnl|rn3|chr1 (76602583-76602078)

Aligned organism(s): 10 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


               
               287-649, gnl|bosTau2|chr18 (47371106-47370744)
               

               
               287-649, gnl|canFam2|chr1 (111488570-111488053)
               

               
               287-649, gnl|hg17|chr19 (52598149-52598647)
               

               
               287-649, gnl|Hg17|chr19 (52598567-52598223)
               

               
               287-649, gnl|mm7|chr7 (13948946-13948438)
               

               
               287-649, gnl|Mm7|chr7 (13948519-13948878)
               

               
               287-649, gnl|oryCun1|scaffold_174505 (51287-51764)
               

               
               287-649, gnl|panTro1|chr20 (49909798-49910296)
               

               
               287-649, gnl|rheMac2|chr19 (53738346-53738831)
               

               
               287-649, gnl|rn3|chr1 (76602583-76602078)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               col (0.195008)
               

               
               nlu (0.191681)
               

               
               mcp (0.170648)
               

               
               hyp (0.142837)
               

               
               ebs (0.118301)
               

               
               nbm (0.0993246)

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


               
               col (0.195008)
               

               
               nlu (0.191681)
               

               
               mcp (0.170648)
               

               
               hyp (0.142837)
               

               
               ebs (0.118301)
               

               
               nbm (0.0993246)

	345-649, + strand, RNAz p=0.996645
	347-649, - strand, RNAz p=0.999871

	499-593, 86510 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW446616.1\|), blast E-value=6e-21, identity=89.47%
	499-411, 145843 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE236862.1\|), blast E-value=0.000000000000006, identity=92.31%
	499-411, 145844 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE236863.1\|), blast E-value=0.000000000000006, identity=92.31%
	499-411, 1182133 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN282098.1\|), blast E-value=0.000000000000006, identity=92.31%
	499-411, 1182474 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN282414.1\|), blast E-value=0.000000000000006, identity=92.31%
	499-411, 1183669 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN283467.1\|), blast E-value=0.000000000000006, identity=92.31%

	287-649, gnl\|bosTau2\|chr18 (47371106-47370744)
	287-649, gnl\|canFam2\|chr1 (111488570-111488053)
	287-649, gnl\|hg17\|chr19 (52598149-52598647)
	287-649, gnl\|Hg17\|chr19 (52598567-52598223)
	287-649, gnl\|mm7\|chr7 (13948946-13948438)
	287-649, gnl\|Mm7\|chr7 (13948519-13948878)
	287-649, gnl\|oryCun1\|scaffold_174505 (51287-51764)
	287-649, gnl\|panTro1\|chr20 (49909798-49910296)
	287-649, gnl\|rheMac2\|chr19 (53738346-53738831)
	287-649, gnl\|rn3\|chr1 (76602583-76602078)

	col (0.195008)
	nlu (0.191681)
	mcp (0.170648)
	hyp (0.142837)
	ebs (0.118301)
	nbm (0.0993246)