Non-Coding RNA Search

Ss1.1-rmed21c_j24.5

Sequence:


               
               GAACTGAACTCTTGTCACTGCCACTCCCAGGAAGCCATGTGCAAGTGTGTGGGGGTTGGG
CTGTGTCCTCCCTGGGGGCCCTCCAAGGTCATCAGGTCCCTAGACCCCATTCACCAATGT
GTTTACCCAAGCCATTTGCAGAACCCTGAGCCCAGGGCCCTGGTACTCTAGCTCCATCCA
GCCTCAGTCTGGAATGAGACACCAGGGCCTACAGAATTTTCTCAGGCTGCAGTCTGAGCC
CCCCACCCCGACCCCAAACCCTGGGTGTGGGGGCAAACCTCAAGAAAGCTGCCATCCTGT
GAAATTCTGTCCAAGAGGTGGTTCCAAGCCCACCAGCCTGTCTTGGAATCTGGTCGTATA
AAACTGGTAGGGGTTCTTAATGTGGTTGCCTCATGGGGGGTGGCAGTGGTGGGAGGGCAA
CAGAGTCCTCAGGAGACAGGTGATAGGGGAAAGGCCAAAGGAAGACAACTGGGAGCAAGT
CACTAAATAAAGGCGTTGACTAACTAGGACACACAGGCACCCTCAATTGCCCCCAAGGGT
GGTCAACTGGGGCTTCTGAATAAAGTTCCTTCCCTGGTACCCAGTGTAGAGATTTGGTTC
TGGGATCCTGGAGGTGACTGCAAAGCTCAGAAATAACACAACTTCACAGTTTCTGTCTGG
GCTGTGCTGAGAACAGTTGGCTGATGTTGCCCTCATAAACATCTCTTCACTAGCCCATGG
GGCTGTCCCTGAGCTCAGGACCCAGAGTCTCACCCCTTCCTGGGGCAGAGGGTAAGGCCA
CAGAGAGCTCTGGCTTACAGGACCCAGGATTTATTTTGCTGTAAGTTTGGCCCTTCTTCA
TCCCTCTTAAGAAGGTGTGATCCAGTGTCTCTGTACCCCCAGATTTTATTAATTGTAAGG
ACCATTCTCATAGTAAATAAACTAACAGTTGTCTGAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAACTGAACTCTTGTCACTGCCACTCCCAGGAAGCCATGTGCAAGTGTGTGGGGGTTGGG
CTGTGTCCTCCCTGGGGGCCCTCCAAGGTCATCAGGTCCCTAGACCCCATTCACCAATGT
GTTTACCCAAGCCATTTGCAGAACCCTGAGCCCAGGGCCCTGGTACTCTAGCTCCATCCA
GCCTCAGTCTGGAATGAGACACCAGGGCCTACAGAATTTTCTCAGGCTGCAGTCTGAGCC
CCCCACCCCGACCCCAAACCCTGGGTGTGGGGGCAAACCTCAAGAAAGCTGCCATCCTGT
GAAATTCTGTCCAAGAGGTGGTTCCAAGCCCACCAGCCTGTCTTGGAATCTGGTCGTATA
AAACTGGTAGGGGTTCTTAATGTGGTTGCCTCATGGGGGGTGGCAGTGGTGGGAGGGCAA
CAGAGTCCTCAGGAGACAGGTGATAGGGGAAAGGCCAAAGGAAGACAACTGGGAGCAAGT
CACTAAATAAAGGCGTTGACTAACTAGGACACACAGGCACCCTCAATTGCCCCCAAGGGT
GGTCAACTGGGGCTTCTGAATAAAGTTCCTTCCCTGGTACCCAGTGTAGAGATTTGGTTC
TGGGATCCTGGAGGTGACTGCAAAGCTCAGAAATAACACAACTTCACAGTTTCTGTCTGG
GCTGTGCTGAGAACAGTTGGCTGATGTTGCCCTCATAAACATCTCTTCACTAGCCCATGG
GGCTGTCCCTGAGCTCAGGACCCAGAGTCTCACCCCTTCCTGGGGCAGAGGGTAAGGCCA
CAGAGAGCTCTGGCTTACAGGACCCAGGATTTATTTTGCTGTAAGTTTGGCCCTTCTTCA
TCCCTCTTAAGAAGGTGTGATCCAGTGTCTCTGTACCCCCAGATTTTATTAATTGTAAGG
ACCATTCTCATAGTAAATAAACTAACAGTTGTCTGAAAAAAAAAAAAAAAAAAAAAAAAA

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

More info

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

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               669-922, - strand, RNAz p=0.994412

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


               
               669-922, - strand, RNAz p=0.994412

Similar Transcript(s): 5 entry(ies)

More info

Similar Transcript(s): 5 entry(ies)

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               833-922, 85432 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW446390.1|), 
blast E-value=0.00000000000007, identity=87.91% 
               

               
               726-922, 4001220 BARC 5BOV Bos taurus cDNA clone 5BOV_78L03 3', mRNA 
(gb|CA035562.1|), blast E-value=1e-21, identity=83.5% 
               

               
               726-922, 966884 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK775748.1|), 
blast E-value=1e-21, identity=83.5% 
               

               
               776-922, BovGen_10730 normal cattle brain Bos taurus cDNA clone 
(gb|CO882405.1|), blast E-value=0.000000000000001, identity=84.67% 
               

               
               726-922, LB02938.CR_P12 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE351355.1|), 
blast E-value=1e-21, identity=83.5%

Similar Transcript(s): 5 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


               
               833-922, 85432 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW446390.1|), 
blast E-value=0.00000000000007, identity=87.91% 
               

               
               726-922, 4001220 BARC 5BOV Bos taurus cDNA clone 5BOV_78L03 3', mRNA 
(gb|CA035562.1|), blast E-value=1e-21, identity=83.5% 
               

               
               726-922, 966884 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK775748.1|), 
blast E-value=1e-21, identity=83.5% 
               

               
               776-922, BovGen_10730 normal cattle brain Bos taurus cDNA clone 
(gb|CO882405.1|), blast E-value=0.000000000000001, identity=84.67% 
               

               
               726-922, LB02938.CR_P12 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE351355.1|), 
blast E-value=1e-21, identity=83.5%

Aligned organism(s): 5 entry(ies)

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Aligned organism(s): 5 entry(ies)

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               2-185, gnl|bosTau2|chr7 (918226-918044)
               

               
               2-185, gnl|Hg17|chr1 (224888993-224888830)
               

               
               2-185, gnl|Mm7|chr11 (59072416-59072575)
               


               
               478-922, gnl|bosTau2|chr7 (917789-917347)
               

               
               478-922, gnl|Hg17|chr1 (224888578-224888130)

Aligned organism(s): 5 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


               
               2-185, gnl|bosTau2|chr7 (918226-918044)
               

               
               2-185, gnl|Hg17|chr1 (224888993-224888830)
               

               
               2-185, gnl|Mm7|chr11 (59072416-59072575)
               


               
               478-922, gnl|bosTau2|chr7 (917789-917347)
               

               
               478-922, gnl|Hg17|chr1 (224888578-224888130)

Expressed library(ies): 13 entry(ies)

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Expressed library(ies): 13 entry(ies)

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               mas (0.210305)
               

               
               col (0.195008)
               

               
               fty (0.17584)
               

               
               duo (0.172801)
               

               
               lnt (0.142308)
               

               
               nca (0.136874)
               

               
               cov (0.132153)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               eru (0.120048)
               

               
               ebs (0.118301)
               

               
               med (0.116252)
               

               
               jej (0.0989218)

Expressed library(ies): 13 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


               
               mas (0.210305)
               

               
               col (0.195008)
               

               
               fty (0.17584)
               

               
               duo (0.172801)
               

               
               lnt (0.142308)
               

               
               nca (0.136874)
               

               
               cov (0.132153)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               eru (0.120048)
               

               
               ebs (0.118301)
               

               
               med (0.116252)
               

               
               jej (0.0989218)

	833-922, 85432 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW446390.1\|), blast E-value=0.00000000000007, identity=87.91%
	726-922, 4001220 BARC 5BOV Bos taurus cDNA clone 5BOV_78L03 3', mRNA (gb\|CA035562.1\|), blast E-value=1e-21, identity=83.5%
	726-922, 966884 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK775748.1\|), blast E-value=1e-21, identity=83.5%
	776-922, BovGen_10730 normal cattle brain Bos taurus cDNA clone (gb\|CO882405.1\|), blast E-value=0.000000000000001, identity=84.67%
	726-922, LB02938.CR_P12 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE351355.1\|), blast E-value=1e-21, identity=83.5%

	2-185, gnl\|bosTau2\|chr7 (918226-918044)
	2-185, gnl\|Hg17\|chr1 (224888993-224888830)
	2-185, gnl\|Mm7\|chr11 (59072416-59072575)

	478-922, gnl\|bosTau2\|chr7 (917789-917347)
	478-922, gnl\|Hg17\|chr1 (224888578-224888130)

	mas (0.210305)
	col (0.195008)
	fty (0.17584)
	duo (0.172801)
	lnt (0.142308)
	nca (0.136874)
	cov (0.132153)
	ese (0.126502)
	eep (0.122564)
	eru (0.120048)
	ebs (0.118301)
	med (0.116252)
	jej (0.0989218)