Non-Coding RNA Search

Ss1.1-Pig4-TMW8050H13.3

Sequence:


               
               AAGCGAACTTTGAAGAACGATGAACTATAACCCCCGCCTCCCAGTTCCCCCCTCGTCCGC
CCCCTTCTCCTGCCACCACCTCTATTTATTAAACACCAAGGGCTGGGGGAGGGGTCGGTC
CTGCCCTCAGAGGCCTGAGTTCCTCTTCTCACCTGTGATCGGAGATGTGGAGAAGGGGAC
GGGAAGACCAGCTCACCAGTTCCTTCCAGAGTAGTTCTGTGGTTAAAACTGAAATTGTTC
TGTTCCCAATCCCACCCCCTGGTTCCCTGCCCATCCAGGCCCTCATTTGGGAAAAATCAC
TAGTATGTCTTAATTCTTTGCCTGTGGGTAGGCGAGAGAATGGCCATTCGTGGCTGCTAG
GCCTGGTAGAGGAAAGGGTGTCCTGGGGTATTAGAGGGTCTCTGGTCTTCTCTGGTCCTC
TTCCTTTCTCCCTCCCTCTCCCACCTCGAGACTGATGCCACACGGGCCAGTGTCTGCAGA
GCCTTGGTCACCAGGTTTGTTTCTGAGTGCCTGTGCTCTTGCCTCGTCTGAGATCTTTCC
CTAAAGACCCCCATCCCCATGCCTCCTCTCCCTAGTCTCCTTGGCTTTCTGCACGTTGGG
CAGTCCTCTGCCTCTTGCTCAGAGCCCTTCATCTGGACTGAAGTCTTATCTAGATGGACT
CCCACCCACACGTACCACCCACACGTACCACCCCCAGCGGCCAGAGTTGGCAGGGAGAAA
GTGAAGAAGGAAATCCAGCTGCCTCTCCAGGAAGTGAGATGTGTGAAAATCCTGTGGCTC
CCCCACCTGTGGACTCTTGGGCCTAGGAAAGCCATGTGGAGTGGCTGGCACAGGATGCCA
GCGTCCGGCAGGCGCTCAAAATCTGCATCTTCCCAGGAGCCTGGTACTCCGTGTCCCTTT
GATTTCCTGCCCCTTTTCTCTCCCCAACTGTGCAGCACCCCTAGACAGCCTTTCCCTCAC
CCTTGGCCCCCTGGGCTGACCAAAATGTGCTTTCTACTGTGAGCCCCTATCCTGAGGCCC
TGGGGGGCAGAAGACACCATGGCGTGAATGTAACAAAGCCACCTCGCTCTCTTAGAGGCA
GACCTTGCAACGGAATGAAGAGGGTACATGCTGGCCTTTTGTGTGCTGCCCTGCTGGGAT
GGGGGCCCTTTACCTGCCACGCAGATATTGGGCAGCTTCCTCTCCTGGATCCCATCTGTA
GCAGGAGTCAGGGCTGCCACCCCAGCTCCTAGGGCAAGAGGGAGCCTGGTTTTGTCTTGT
CCTTTTTTTCCTTTTTTTTGCCACATTGGCAGAAATGAGACCTAAGGGTCTTACCCCGTC
CTGTATGTTTTGAGTTGTTTCACTTGCAGTTAAGGCTGGTTGGACAGGTTTGAGTCAAAT
TGTACTTTGTTCCATTGTTAATTGAGAAACTGTTTCAATAAAATATTCTTTTCTACAAAA
AAAAAAAAAAAAAAACTCCAGTCG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAGCGAACTTTGAAGAACGATGAACTATAACCCCCGCCTCCCAGTTCCCCCCTCGTCCGC
CCCCTTCTCCTGCCACCACCTCTATTTATTAAACACCAAGGGCTGGGGGAGGGGTCGGTC
CTGCCCTCAGAGGCCTGAGTTCCTCTTCTCACCTGTGATCGGAGATGTGGAGAAGGGGAC
GGGAAGACCAGCTCACCAGTTCCTTCCAGAGTAGTTCTGTGGTTAAAACTGAAATTGTTC
TGTTCCCAATCCCACCCCCTGGTTCCCTGCCCATCCAGGCCCTCATTTGGGAAAAATCAC
TAGTATGTCTTAATTCTTTGCCTGTGGGTAGGCGAGAGAATGGCCATTCGTGGCTGCTAG
GCCTGGTAGAGGAAAGGGTGTCCTGGGGTATTAGAGGGTCTCTGGTCTTCTCTGGTCCTC
TTCCTTTCTCCCTCCCTCTCCCACCTCGAGACTGATGCCACACGGGCCAGTGTCTGCAGA
GCCTTGGTCACCAGGTTTGTTTCTGAGTGCCTGTGCTCTTGCCTCGTCTGAGATCTTTCC
CTAAAGACCCCCATCCCCATGCCTCCTCTCCCTAGTCTCCTTGGCTTTCTGCACGTTGGG
CAGTCCTCTGCCTCTTGCTCAGAGCCCTTCATCTGGACTGAAGTCTTATCTAGATGGACT
CCCACCCACACGTACCACCCACACGTACCACCCCCAGCGGCCAGAGTTGGCAGGGAGAAA
GTGAAGAAGGAAATCCAGCTGCCTCTCCAGGAAGTGAGATGTGTGAAAATCCTGTGGCTC
CCCCACCTGTGGACTCTTGGGCCTAGGAAAGCCATGTGGAGTGGCTGGCACAGGATGCCA
GCGTCCGGCAGGCGCTCAAAATCTGCATCTTCCCAGGAGCCTGGTACTCCGTGTCCCTTT
GATTTCCTGCCCCTTTTCTCTCCCCAACTGTGCAGCACCCCTAGACAGCCTTTCCCTCAC
CCTTGGCCCCCTGGGCTGACCAAAATGTGCTTTCTACTGTGAGCCCCTATCCTGAGGCCC
TGGGGGGCAGAAGACACCATGGCGTGAATGTAACAAAGCCACCTCGCTCTCTTAGAGGCA
GACCTTGCAACGGAATGAAGAGGGTACATGCTGGCCTTTTGTGTGCTGCCCTGCTGGGAT
GGGGGCCCTTTACCTGCCACGCAGATATTGGGCAGCTTCCTCTCCTGGATCCCATCTGTA
GCAGGAGTCAGGGCTGCCACCCCAGCTCCTAGGGCAAGAGGGAGCCTGGTTTTGTCTTGT
CCTTTTTTTCCTTTTTTTTGCCACATTGGCAGAAATGAGACCTAAGGGTCTTACCCCGTC
CTGTATGTTTTGAGTTGTTTCACTTGCAGTTAAGGCTGGTTGGACAGGTTTGAGTCAAAT
TGTACTTTGTTCCATTGTTAATTGAGAAACTGTTTCAATAAAATATTCTTTTCTACAAAA
AAAAAAAAAAAAAAACTCCAGTCG

Predicted RNA structure(s): 6 entry(ies)

More info

Predicted RNA structure(s): 6 entry(ies)

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               40-154, - strand, RNAz p=0.999881
               

               
               310-423, - strand, RNAz p=0.506362
               

               
               532-632, - strand, RNAz p=0.907095
               

               
               710-982, - strand, RNAz p=0.72461
               

               
               1137-1251, - strand, RNAz p=0.822291
               

               
               1276-1377, - strand, RNAz p=0.839207

Predicted RNA structure(s): 6 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


               
               40-154, - strand, RNAz p=0.999881
               

               
               310-423, - strand, RNAz p=0.506362
               

               
               532-632, - strand, RNAz p=0.907095
               

               
               710-982, - strand, RNAz p=0.72461
               

               
               1137-1251, - strand, RNAz p=0.822291
               

               
               1276-1377, - strand, RNAz p=0.839207

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1186-1339, - strand, RNAmicro p=0.992983

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


               
               1186-1339, - strand, RNAmicro p=0.992983

Similar Transcript(s): 2 entry(ies)

More info

Similar Transcript(s): 2 entry(ies)

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               40-154, BP165255 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|BP165255.1|), blast E-value=0, identity=100% 
               

               
               40-154, BW981293 full-length enriched swine cDNA library, adult intestine 
(dbj|BW981293.1|), blast E-value=0, identity=100%

Similar Transcript(s): 2 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


               
               40-154, BP165255 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|BP165255.1|), blast E-value=0, identity=100% 
               

               
               40-154, BW981293 full-length enriched swine cDNA library, adult intestine 
(dbj|BW981293.1|), blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1435, gnl|bosTau2|chr15 (14242405-14240962)
               

               
               1-1435, gnl|Hg17|chr11 (118421544-118420111)
               

               
               1-1435, gnl|Mm7|chr9 (44325366-44326705)

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


               
               1-1435, gnl|bosTau2|chr15 (14242405-14240962)
               

               
               1-1435, gnl|Hg17|chr11 (118421544-118420111)
               

               
               1-1435, gnl|Mm7|chr9 (44325366-44326705)

Expressed library(ies): 20 entry(ies)

More info

Expressed library(ies): 20 entry(ies)

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               cov (0.528611)
               

               
               elu (0.385356)
               

               
               clu (0.358938)
               

               
               duo (0.345602)
               

               
               cje (0.330469)
               

               
               fce (0.271592)
               

               
               ute (0.265569)
               

               
               ece (0.229305)
               

               
               ill (0.175593)
               

               
               ton (0.1755)
               

               
               nje (0.16592)
               

               
               cki (0.165235)
               

               
               cag (0.151194)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               tra (0.123092)
               

               
               ebs (0.118301)
               

               
               med (0.116252)
               

               
               eje (0.0988338)

Expressed library(ies): 20 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


               
               cov (0.528611)
               

               
               elu (0.385356)
               

               
               clu (0.358938)
               

               
               duo (0.345602)
               

               
               cje (0.330469)
               

               
               fce (0.271592)
               

               
               ute (0.265569)
               

               
               ece (0.229305)
               

               
               ill (0.175593)
               

               
               ton (0.1755)
               

               
               nje (0.16592)
               

               
               cki (0.165235)
               

               
               cag (0.151194)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               tra (0.123092)
               

               
               ebs (0.118301)
               

               
               med (0.116252)
               

               
               eje (0.0988338)

	40-154, - strand, RNAz p=0.999881
	310-423, - strand, RNAz p=0.506362
	532-632, - strand, RNAz p=0.907095
	710-982, - strand, RNAz p=0.72461
	1137-1251, - strand, RNAz p=0.822291
	1276-1377, - strand, RNAz p=0.839207

	40-154, BP165255 full-length enriched swine cDNA library, adult thymus Sus (dbj\|BP165255.1\|), blast E-value=0, identity=100%
	40-154, BW981293 full-length enriched swine cDNA library, adult intestine (dbj\|BW981293.1\|), blast E-value=0, identity=100%

	1-1435, gnl\|bosTau2\|chr15 (14242405-14240962)
	1-1435, gnl\|Hg17\|chr11 (118421544-118420111)
	1-1435, gnl\|Mm7\|chr9 (44325366-44326705)

	cov (0.528611)
	elu (0.385356)
	clu (0.358938)
	duo (0.345602)
	cje (0.330469)
	fce (0.271592)
	ute (0.265569)
	ece (0.229305)
	ill (0.175593)
	ton (0.1755)
	nje (0.16592)
	cki (0.165235)
	cag (0.151194)
	hyp (0.142837)
	pty (0.142714)
	lnt (0.142308)
	tra (0.123092)
	ebs (0.118301)
	med (0.116252)
	eje (0.0988338)