Non-Coding RNA Search

Ss1.1-Liv1-LVR010019H11.5

Sequence:


               
               AACACGCCCGGTGGCTGCTGGGTGGTAGGTGAGGGATCGGCTTTCCCTCTTACTTCCCAC
CCTAGGACTTCTTAGCCTCTGGAATGCAAGAAGGGCTCAGGGAGTTCCCAGAGTGGGGTG
TAGAGGGGGACCTTCCTAGGGTCCCTTTTCCTTCTTGGGTTGCTATGGAGTTCCCAGAAC
ACAGCCAGCAGCTGCTGCAGAGCCTCCGAGAGCAGCGGTCCCAGGGTTTTCTTTGTGACT
GCACCGTGATGGTGGGTAGCACTCAGTTCTTGGCTCATCGGGCAGTGCTGGCCTCCTGCA
GCCCATTTTTCCAGCTTTTCTACAAAGAGCGGGAACTGGACAAGAGGGATCTGGTGTGTA
TCCACAACGAGATTGTCACAGCCCCAGCCTTTGGGCTGCTTCTGGACTTTATGTATGCTG
GCCAGCTGGTCCTGAGGGGAGATACCCCTGTGGAGGATGTGCTGGCAGCTGCCAGCTACT
TGCACATGAATGATATCGTCAAGGTGTGTAAGCGGCGGCTGCAAGCCCGGGCCCTGGCAG
AGGCAGACAGTACCAAGAAGGAGGAGGAAACCAACTCACAGCCTTCTAATTTGGAGTTCC
TATCCAGCACTTCCCGTGGTCCCCAGCCTTCTTTGGCATCTGCTGAGACATCAGGCCACT
GGAGCAAAGGGGAGTGGAAAGGCTCAACTGCTCCTTCACCTACTCTCTGCCCTCCAGATG
AGTCACCGATGCCAGCTGGGGCTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AACACGCCCGGTGGCTGCTGGGTGGTAGGTGAGGGATCGGCTTTCCCTCTTACTTCCCAC
CCTAGGACTTCTTAGCCTCTGGAATGCAAGAAGGGCTCAGGGAGTTCCCAGAGTGGGGTG
TAGAGGGGGACCTTCCTAGGGTCCCTTTTCCTTCTTGGGTTGCTATGGAGTTCCCAGAAC
ACAGCCAGCAGCTGCTGCAGAGCCTCCGAGAGCAGCGGTCCCAGGGTTTTCTTTGTGACT
GCACCGTGATGGTGGGTAGCACTCAGTTCTTGGCTCATCGGGCAGTGCTGGCCTCCTGCA
GCCCATTTTTCCAGCTTTTCTACAAAGAGCGGGAACTGGACAAGAGGGATCTGGTGTGTA
TCCACAACGAGATTGTCACAGCCCCAGCCTTTGGGCTGCTTCTGGACTTTATGTATGCTG
GCCAGCTGGTCCTGAGGGGAGATACCCCTGTGGAGGATGTGCTGGCAGCTGCCAGCTACT
TGCACATGAATGATATCGTCAAGGTGTGTAAGCGGCGGCTGCAAGCCCGGGCCCTGGCAG
AGGCAGACAGTACCAAGAAGGAGGAGGAAACCAACTCACAGCCTTCTAATTTGGAGTTCC
TATCCAGCACTTCCCGTGGTCCCCAGCCTTCTTTGGCATCTGCTGAGACATCAGGCCACT
GGAGCAAAGGGGAGTGGAAAGGCTCAACTGCTCCTTCACCTACTCTCTGCCCTCCAGATG
AGTCACCGATGCCAGCTGGGGCTG

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               Q9UD99_HUMAN

Coded protein: 1 entry(ies)

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Protein identifier


               
               Q9UD99_HUMAN

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

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

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               247-566, - strand, RNAz p=0.986219
               

               
               626-744, + strand, RNAz p=0.630754

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


               
               247-566, - strand, RNAz p=0.986219
               

               
               626-744, + strand, RNAz p=0.630754

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               454-535, + strand, RNAmicro p=0.985491

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


               
               454-535, + strand, RNAmicro p=0.985491

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               247-566, BP448003 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP448003.1|), blast E-value=0, identity=100% 
               

               
               247-556, DA775133 OCBBF2 Homo sapiens cDNA clone OCBBF2008980 5', mRNA 
(dbj|DA775133.1|), blast E-value=0, identity=94.84% 
               

               
               247-546, DA927135 SMINT2 Homo sapiens cDNA clone SMINT2014292 5', mRNA 
(dbj|DA927135.1|), blast E-value=0, identity=94.67% 
               

               
               247-566, DB060347 TESTI2 Homo sapiens cDNA clone TESTI2053636 5', mRNA 
(dbj|DB060347.1|), blast E-value=0, identity=95% 
               

               
               247-566, DB114232 THYMU2 Homo sapiens cDNA clone THYMU2019330 5', mRNA 
(dbj|DB114232.1|), blast E-value=0, identity=95% 
               

               
               247-566, 602378444F1 NIH_MGC_92 Homo sapiens cDNA clone IMAGE (gb|BG259363.1|), 
blast E-value=0, identity=94.39%

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


               
               247-566, BP448003 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP448003.1|), blast E-value=0, identity=100% 
               

               
               247-556, DA775133 OCBBF2 Homo sapiens cDNA clone OCBBF2008980 5', mRNA 
(dbj|DA775133.1|), blast E-value=0, identity=94.84% 
               

               
               247-546, DA927135 SMINT2 Homo sapiens cDNA clone SMINT2014292 5', mRNA 
(dbj|DA927135.1|), blast E-value=0, identity=94.67% 
               

               
               247-566, DB060347 TESTI2 Homo sapiens cDNA clone TESTI2053636 5', mRNA 
(dbj|DB060347.1|), blast E-value=0, identity=95% 
               

               
               247-566, DB114232 THYMU2 Homo sapiens cDNA clone THYMU2019330 5', mRNA 
(dbj|DB114232.1|), blast E-value=0, identity=95% 
               

               
               247-566, 602378444F1 NIH_MGC_92 Homo sapiens cDNA clone IMAGE (gb|BG259363.1|), 
blast E-value=0, identity=94.39%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               7-126, gnl|bosTau2|chr29 (32705705-32705823)
               

               
               7-126, gnl|Hg17|chr11 (62278200-62278077)
               

               
               7-126, gnl|Mm7|chr19 (8482672-8482794)
               


               
               128-744, gnl|bosTau2|chr29 (32706176-32706789)
               

               
               128-744, gnl|Hg17|chr11 (62277749-62277133)
               

               
               128-744, gnl|Mm7|chr19 (8483150-8483760)

Aligned organism(s): 6 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


               
               7-126, gnl|bosTau2|chr29 (32705705-32705823)
               

               
               7-126, gnl|Hg17|chr11 (62278200-62278077)
               

               
               7-126, gnl|Mm7|chr19 (8482672-8482794)
               


               
               128-744, gnl|bosTau2|chr29 (32706176-32706789)
               

               
               128-744, gnl|Hg17|chr11 (62277749-62277133)
               

               
               128-744, gnl|Mm7|chr19 (8483150-8483760)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               cty (0.10408)

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


               
               cty (0.10408)

	247-566, - strand, RNAz p=0.986219
	626-744, + strand, RNAz p=0.630754

	247-566, BP448003 full-length enriched swine cDNA library, adult liver Sus (dbj\|BP448003.1\|), blast E-value=0, identity=100%
	247-556, DA775133 OCBBF2 Homo sapiens cDNA clone OCBBF2008980 5', mRNA (dbj\|DA775133.1\|), blast E-value=0, identity=94.84%
	247-546, DA927135 SMINT2 Homo sapiens cDNA clone SMINT2014292 5', mRNA (dbj\|DA927135.1\|), blast E-value=0, identity=94.67%
	247-566, DB060347 TESTI2 Homo sapiens cDNA clone TESTI2053636 5', mRNA (dbj\|DB060347.1\|), blast E-value=0, identity=95%
	247-566, DB114232 THYMU2 Homo sapiens cDNA clone THYMU2019330 5', mRNA (dbj\|DB114232.1\|), blast E-value=0, identity=95%
	247-566, 602378444F1 NIH_MGC_92 Homo sapiens cDNA clone IMAGE (gb\|BG259363.1\|), blast E-value=0, identity=94.39%

	7-126, gnl\|bosTau2\|chr29 (32705705-32705823)
	7-126, gnl\|Hg17\|chr11 (62278200-62278077)
	7-126, gnl\|Mm7\|chr19 (8482672-8482794)

	128-744, gnl\|bosTau2\|chr29 (32706176-32706789)
	128-744, gnl\|Hg17\|chr11 (62277749-62277133)
	128-744, gnl\|Mm7\|chr19 (8483150-8483760)