Non-Coding RNA Search

Ss1.1-Pig4-TMW8066C02.3

Sequence:


               
               CCTGTCTCTGCATAATACCTTCCAGCACAGCAGTAGTGGCCTGCAGTCTGTGTCATCTCT
GGGTCACAGCAGTGCCACTTCTGCATCTTTGCCTTTTATGCCGTTTGTGATGGGTGGTGC
AGCATCATCCCCTCATGTAGACTCCAGCACCATGCTTCATCACCACCACCACCACCCCCA
CCCTCACCATCACCACCATCACCATCCAGGCCTGAGAGCCACTGGCTACCCTTCTTCACC
AGCCACTACCACCTCTGGTACTGCCTTGAGGTTGCCACCACTGCAGCCTGAGGAAGATGA
GGACGATGAGGATGAAGATGATGATGATGATTTATCTCAGGGCTATGATAGCTCAGAAAG
GGACTTCTCACTCATTGATGATCCTATGATGCCAGCCAACTCAGACTCCAGCGAAGATGC
TGATGACTGAAGCCCCAGCATGGTCCCCATTGCTTGGGTGGCGGCTATACTTTCATTTAC
TCTGGCCCTTGGACTATGGAAAAGTGGGAGGGGCAGGGGAGATGTGGGGAAACCCAGGAC
TCCAGGAGGTGACAAGGAAAAAGAAAACGTGTACCTGATTACTTCCAAATTTGAAAGGAT
CGGGTGGGTAGGGGAACTCCTAAAATAATACGTGGCTACTTCCTCCTTTCTGGGGAAGGA
AAGGAGACTAGAGCAGCTGATATGCTCACCCCTCCCTAGACACCTCCATTAACCACAGAC
TATGTAGCGCCGGCACTAGCCTCTGGCAGAGCCTGTTCCTGACCGAACTGTGGATACAGC
TGGAGGGTCAGGAACTGTTACCTTCCTTCCCCTTGGCATTAATAAATTTAAGTTAATCCT
TTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCTGTCTCTGCATAATACCTTCCAGCACAGCAGTAGTGGCCTGCAGTCTGTGTCATCTCT
GGGTCACAGCAGTGCCACTTCTGCATCTTTGCCTTTTATGCCGTTTGTGATGGGTGGTGC
AGCATCATCCCCTCATGTAGACTCCAGCACCATGCTTCATCACCACCACCACCACCCCCA
CCCTCACCATCACCACCATCACCATCCAGGCCTGAGAGCCACTGGCTACCCTTCTTCACC
AGCCACTACCACCTCTGGTACTGCCTTGAGGTTGCCACCACTGCAGCCTGAGGAAGATGA
GGACGATGAGGATGAAGATGATGATGATGATTTATCTCAGGGCTATGATAGCTCAGAAAG
GGACTTCTCACTCATTGATGATCCTATGATGCCAGCCAACTCAGACTCCAGCGAAGATGC
TGATGACTGAAGCCCCAGCATGGTCCCCATTGCTTGGGTGGCGGCTATACTTTCATTTAC
TCTGGCCCTTGGACTATGGAAAAGTGGGAGGGGCAGGGGAGATGTGGGGAAACCCAGGAC
TCCAGGAGGTGACAAGGAAAAAGAAAACGTGTACCTGATTACTTCCAAATTTGAAAGGAT
CGGGTGGGTAGGGGAACTCCTAAAATAATACGTGGCTACTTCCTCCTTTCTGGGGAAGGA
AAGGAGACTAGAGCAGCTGATATGCTCACCCCTCCCTAGACACCTCCATTAACCACAGAC
TATGTAGCGCCGGCACTAGCCTCTGGCAGAGCCTGTTCCTGACCGAACTGTGGATACAGC
TGGAGGGTCAGGAACTGTTACCTTCCTTCCCCTTGGCATTAATAAATTTAAGTTAATCCT
TTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

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               1-200, - strand, RNAz p=0.7407
               

               
               441-842, - strand, RNAz p=0.984728

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


               
               1-200, - strand, RNAz p=0.7407
               

               
               441-842, - strand, RNAz p=0.984728

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               441-841, 151086 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE667014.1|), 
blast E-value=0, identity=95.01% 
               

               
               441-839, 707092 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB452238.1|), 
blast E-value=0, identity=94.74% 
               

               
               441-839, 709799 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB453902.1|), 
blast E-value=0, identity=94.49% 
               

               
               441-834, LeukoN3_3_F03.b1_A025 Unstimulated peripheral blood leukocytes N3 
(gb|CD528634.1|), blast E-value=0, identity=94.42% 
               

               
               441-841, 957953 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769847.1|), 
blast E-value=0, identity=94.76% 
               

               
               486-841, UMC-bend_0B01-024-g03 Day 16 Uterus from a pregnant animal bend Bos 
(gb|CO728292.1|), blast E-value=0, identity=94.94%

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


               
               441-841, 151086 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE667014.1|), 
blast E-value=0, identity=95.01% 
               

               
               441-839, 707092 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB452238.1|), 
blast E-value=0, identity=94.74% 
               

               
               441-839, 709799 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB453902.1|), 
blast E-value=0, identity=94.49% 
               

               
               441-834, LeukoN3_3_F03.b1_A025 Unstimulated peripheral blood leukocytes N3 
(gb|CD528634.1|), blast E-value=0, identity=94.42% 
               

               
               441-841, 957953 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769847.1|), 
blast E-value=0, identity=94.76% 
               

               
               486-841, UMC-bend_0B01-024-g03 Day 16 Uterus from a pregnant animal bend Bos 
(gb|CO728292.1|), blast E-value=0, identity=94.94%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-842, gnl|bosTau2|chr10 (15921234-15920394)
               

               
               1-842, gnl|Hg17|chr14 (20924038-20923197)
               

               
               1-842, gnl|Mm7|chr14 (47532695-47531831)

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


               
               1-842, gnl|bosTau2|chr10 (15921234-15920394)
               

               
               1-842, gnl|Hg17|chr14 (20924038-20923197)
               

               
               1-842, gnl|Mm7|chr14 (47532695-47531831)

Expressed library(ies): 11 entry(ies)

More info

Expressed library(ies): 11 entry(ies)

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               elu (0.385356)
               

               
               nca (0.273748)
               

               
               ese (0.253004)
               

               
               ece (0.229305)
               

               
               fty (0.17584)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               cki (0.165235)
               

               
               eli (0.151814)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)

Expressed library(ies): 11 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


               
               elu (0.385356)
               

               
               nca (0.273748)
               

               
               ese (0.253004)
               

               
               ece (0.229305)
               

               
               fty (0.17584)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               cki (0.165235)
               

               
               eli (0.151814)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)

	1-200, - strand, RNAz p=0.7407
	441-842, - strand, RNAz p=0.984728

	441-841, 151086 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE667014.1\|), blast E-value=0, identity=95.01%
	441-839, 707092 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB452238.1\|), blast E-value=0, identity=94.74%
	441-839, 709799 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB453902.1\|), blast E-value=0, identity=94.49%
	441-834, LeukoN3_3_F03.b1_A025 Unstimulated peripheral blood leukocytes N3 (gb\|CD528634.1\|), blast E-value=0, identity=94.42%
	441-841, 957953 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK769847.1\|), blast E-value=0, identity=94.76%
	486-841, UMC-bend_0B01-024-g03 Day 16 Uterus from a pregnant animal bend Bos (gb\|CO728292.1\|), blast E-value=0, identity=94.94%

	1-842, gnl\|bosTau2\|chr10 (15921234-15920394)
	1-842, gnl\|Hg17\|chr14 (20924038-20923197)
	1-842, gnl\|Mm7\|chr14 (47532695-47531831)

	elu (0.385356)
	nca (0.273748)
	ese (0.253004)
	ece (0.229305)
	fty (0.17584)
	fbs (0.175346)
	mcp (0.170648)
	cki (0.165235)
	eli (0.151814)
	hyp (0.142837)
	pty (0.142714)