Non-Coding RNA Search

Ss1.1-Pig4-TMW8013P05.5.5

Sequence:


               
               CTTCCCAGATTCAGGAGGTCAAGGAACAGCGGATCAGCGGGCTCCTGGTCGCTGTGCTCG
TGGGCCTGTCCATCCTCATGGGGCCCATCCTGTCCCACATCCCCCTGGCTGTGCTGTTTG
GCATCTTCCTCTACATGGGGGTCACGTCACTCAGTGGCATCCAGCTCTTTGACCGCATCT
TGCTTCTGTTCAAGCCGTCCAAGTACCACCCGGATATACCCTATGCCAAGCGGGTGAGAA
CCTGGCGCATGCACCTGTACACGCTCACCCAGATCATCTGCCTCGTGGTGCTGTGGACGG
TGAAGTTCTTCCCATCCACCTCGCTGGCCCTGCCCTTCGTCCTCATCCTCACGGTGCCCC
TCCGCCTCTTCCTGCTGCCACTCATCTTCAGGAAACTGGAGCTCCAATGTCTGGATGCTG
ATGATGCGAAGCCCAACTTAGACGAGGAGCACGGTCGGGATGAATATGACGAGGTGCACA
TGCCTGTGTGAGGGGGGGGCCCGGGGCCCCGGCGCCCCCTCCGCCGTTCCACGGGCCCAC
TCTCCCAGGAAAAGCAGAGGCTCATGGGCACCTCCTGGACTCCCAGGTCCCTCCGGGGGA
AGCAGCTGAGGTCCGGGGGCCATGGGTTAGGGGGAAGGAAGGGGTGTCTAAGAAACCTTC
CGTGAAGGGTAGGCTGGCTTTTCTGGCAGGAAATGGCCAGTGGGGTCCACAGCAGGGGAT
TTACCGTGCAGTCCCTTCTGGGGCCACACTGCCACTTGGGGGGTCCCACGCCAGAAGACC
TAGATCTGAGCCCTCATGGCACAGACAGGAGCAGTGATGGGGGTGGAGGGAGGGCGCTAG
GGGAAGGGTGGGTATTCAAATTCCTATTTGCTGTGTGACCTTGGGCAAGTCCTTGGATCT
CTCCAGCCTCTGCTTCCTCATCTGTAAAATGGGTATATCAATAATCACATACCCACATTA
CAGGATGGTTTCTGAGGACCAAAGATAAATGTGAGGAAAGGGCTTTGGGAGTTCCTGTCA
TGGCAGAGTGGTTAACGACTCCGACTAAGAACCATGAGGTTTGGGGTTCGATCCCTGGCC
TCGCTCAGTGGGTTAAGGATCCGGCGTTGCCATGAGCTGTGGTGTAGGTTGCAGATGCGG
CTTGGATCCTGCGTTGCTGTGGCTCTGGCATAGGCCGGTGGCTACAGCTCCAATTGGACC
GCTAGCCTGGGAACCTCCATGTGCCGTGGGAGCGGCCTTAGAAAAGGC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTTCCCAGATTCAGGAGGTCAAGGAACAGCGGATCAGCGGGCTCCTGGTCGCTGTGCTCG
TGGGCCTGTCCATCCTCATGGGGCCCATCCTGTCCCACATCCCCCTGGCTGTGCTGTTTG
GCATCTTCCTCTACATGGGGGTCACGTCACTCAGTGGCATCCAGCTCTTTGACCGCATCT
TGCTTCTGTTCAAGCCGTCCAAGTACCACCCGGATATACCCTATGCCAAGCGGGTGAGAA
CCTGGCGCATGCACCTGTACACGCTCACCCAGATCATCTGCCTCGTGGTGCTGTGGACGG
TGAAGTTCTTCCCATCCACCTCGCTGGCCCTGCCCTTCGTCCTCATCCTCACGGTGCCCC
TCCGCCTCTTCCTGCTGCCACTCATCTTCAGGAAACTGGAGCTCCAATGTCTGGATGCTG
ATGATGCGAAGCCCAACTTAGACGAGGAGCACGGTCGGGATGAATATGACGAGGTGCACA
TGCCTGTGTGAGGGGGGGGCCCGGGGCCCCGGCGCCCCCTCCGCCGTTCCACGGGCCCAC
TCTCCCAGGAAAAGCAGAGGCTCATGGGCACCTCCTGGACTCCCAGGTCCCTCCGGGGGA
AGCAGCTGAGGTCCGGGGGCCATGGGTTAGGGGGAAGGAAGGGGTGTCTAAGAAACCTTC
CGTGAAGGGTAGGCTGGCTTTTCTGGCAGGAAATGGCCAGTGGGGTCCACAGCAGGGGAT
TTACCGTGCAGTCCCTTCTGGGGCCACACTGCCACTTGGGGGGTCCCACGCCAGAAGACC
TAGATCTGAGCCCTCATGGCACAGACAGGAGCAGTGATGGGGGTGGAGGGAGGGCGCTAG
GGGAAGGGTGGGTATTCAAATTCCTATTTGCTGTGTGACCTTGGGCAAGTCCTTGGATCT
CTCCAGCCTCTGCTTCCTCATCTGTAAAATGGGTATATCAATAATCACATACCCACATTA
CAGGATGGTTTCTGAGGACCAAAGATAAATGTGAGGAAAGGGCTTTGGGAGTTCCTGTCA
TGGCAGAGTGGTTAACGACTCCGACTAAGAACCATGAGGTTTGGGGTTCGATCCCTGGCC
TCGCTCAGTGGGTTAAGGATCCGGCGTTGCCATGAGCTGTGGTGTAGGTTGCAGATGCGG
CTTGGATCCTGCGTTGCTGTGGCTCTGGCATAGGCCGGTGGCTACAGCTCCAATTGGACC
GCTAGCCTGGGAACCTCCATGTGCCGTGGGAGCGGCCTTAGAAAAGGC

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

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

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               883-1007, - strand, RNAz p=0.999606

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


               
               883-1007, - strand, RNAz p=0.999606

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               907-1008, - strand, RNAmicro p=0.999884

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


               
               907-1008, - strand, RNAmicro p=0.999884

Similar Transcript(s): 2 entry(ies)

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Similar Transcript(s): 2 entry(ies)

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               894-1004, CR454312 Normalized and Subtracted bovine embryonic and 
(emb|CR454312.2|), blast E-value=1e-26, identity=90.09% 
               

               
               894-1004, CR456244 Normalized and Subtracted bovine embryonic and 
(emb|CR456244.2|), blast E-value=1e-26, identity=90.09%

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


               
               894-1004, CR454312 Normalized and Subtracted bovine embryonic and 
(emb|CR454312.2|), blast E-value=1e-26, identity=90.09% 
               

               
               894-1004, CR456244 Normalized and Subtracted bovine embryonic and 
(emb|CR456244.2|), blast E-value=1e-26, identity=90.09%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               48-244, gnl|bosTau2|chr19 (38046826-38047022)
               

               
               48-244, gnl|Hg17|chr17 (39684497-39684300)
               

               
               48-244, gnl|Mm7|chr11 (102460579-102460386)
               


               
               411-1007, gnl|bosTau2|chr19 (38047969-38048559)
               

               
               411-1007, gnl|Hg17|chr17 (39683432-39682856)
               

               
               411-1007, gnl|Mm7|chr11 (102459406-102458905)

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


               
               48-244, gnl|bosTau2|chr19 (38046826-38047022)
               

               
               48-244, gnl|Hg17|chr17 (39684497-39684300)
               

               
               48-244, gnl|Mm7|chr11 (102460579-102460386)
               


               
               411-1007, gnl|bosTau2|chr19 (38047969-38048559)
               

               
               411-1007, gnl|Hg17|chr17 (39683432-39682856)
               

               
               411-1007, gnl|Mm7|chr11 (102459406-102458905)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               elu (0.385356)
               

               
               nca (0.273748)
               

               
               cki (0.165235)
               

               
               eli (0.151814)

Expressed library(ies): 4 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


               
               elu (0.385356)
               

               
               nca (0.273748)
               

               
               cki (0.165235)
               

               
               eli (0.151814)

	894-1004, CR454312 Normalized and Subtracted bovine embryonic and (emb\|CR454312.2\|), blast E-value=1e-26, identity=90.09%
	894-1004, CR456244 Normalized and Subtracted bovine embryonic and (emb\|CR456244.2\|), blast E-value=1e-26, identity=90.09%

	48-244, gnl\|bosTau2\|chr19 (38046826-38047022)
	48-244, gnl\|Hg17\|chr17 (39684497-39684300)
	48-244, gnl\|Mm7\|chr11 (102460579-102460386)

	411-1007, gnl\|bosTau2\|chr19 (38047969-38048559)
	411-1007, gnl\|Hg17\|chr17 (39683432-39682856)
	411-1007, gnl\|Mm7\|chr11 (102459406-102458905)