Non-Coding RNA Search

Ss1.1-rcbl0_014520.5

Sequence:


               
               GAGAGATCCAATTCGAATTCTGGTGAAAAAGGAAGAATTGACCCTTGAAGGAATCAAACA
GTTTTATATTAATGTTGAAAGAGAGGTAATTTGTCTAATTGTAAAAAATTGTAGCCAGGT
TTTTTTAACCTTCTTGTATAAGCACTGTGCTAAAATTACAGAAACTAGGATCACATCTTG
GTTTTTGTAATAATGCTAGCAGAGTACACACAAGAAGAAGAGTAACTGCACTAGATTGTA
AAGACTGGGGTGGACCTCTTTCTTAATGTCCAGTGTCCTTTGTCTTAACGTTTGGTGCCA
TATATTTATTTGTAGATAGTCAAGCAATGAATTTCGAATGAATATAAGTTGGAAACAGTT
CTTTTAATGACTTTTTTTTCTCGAAAATACTGTAGGAATGGAAGTTGGATACACTTTGTG
ACTTGTATGAGACACTGACGATTACACAGGCTGTGATTTTTCTCAATACAAGGCGCAAGG
TGGACTGGCTTACTGAGAAAATGC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGAGATCCAATTCGAATTCTGGTGAAAAAGGAAGAATTGACCCTTGAAGGAATCAAACA
GTTTTATATTAATGTTGAAAGAGAGGTAATTTGTCTAATTGTAAAAAATTGTAGCCAGGT
TTTTTTAACCTTCTTGTATAAGCACTGTGCTAAAATTACAGAAACTAGGATCACATCTTG
GTTTTTGTAATAATGCTAGCAGAGTACACACAAGAAGAAGAGTAACTGCACTAGATTGTA
AAGACTGGGGTGGACCTCTTTCTTAATGTCCAGTGTCCTTTGTCTTAACGTTTGGTGCCA
TATATTTATTTGTAGATAGTCAAGCAATGAATTTCGAATGAATATAAGTTGGAAACAGTT
CTTTTAATGACTTTTTTTTCTCGAAAATACTGTAGGAATGGAAGTTGGATACACTTTGTG
ACTTGTATGAGACACTGACGATTACACAGGCTGTGATTTTTCTCAATACAAGGCGCAAGG
TGGACTGGCTTACTGAGAAAATGC

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

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

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               80-238, + strand, RNAz p=0.999582
               

               
               393-504, - strand, RNAz p=0.976606

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


               
               80-238, + strand, RNAz p=0.999582
               

               
               393-504, - strand, RNAz p=0.976606

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               121-259, - strand, RNAmicro p=0.998807
               

               
               229-299, + strand, RNAmicro p=0.997939
               

               
               130-218, + strand, RNAmicro p=0.997799

Predicted microRNA(s): 3 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


               
               121-259, - strand, RNAmicro p=0.998807
               

               
               229-299, + strand, RNAmicro p=0.997939
               

               
               130-218, + strand, RNAmicro p=0.997799

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               128-238, DB216187 TRACH3 Homo sapiens cDNA clone TRACH3005152 5', mRNA 
(dbj|DB216187.1|), blast E-value=6e-38, identity=93.69% 
               

               
               128-238, DB284915 UTERU3 Homo sapiens cDNA clone UTERU3012993 5', mRNA 
(dbj|DB284915.1|), blast E-value=1e-35, identity=92.79% 
               

               
               80-194, DB793630 full-length enriched swine cDNA library, adult immature 
(dbj|DB793630.1|), blast E-value=1.96182e-44, identity=93.91% 
               

               
               128-238, id60d02.y1 Melton Normalized Mixed Mouse Pancreas 1 N1-MMS1 Mus 
(gb|BM022434.1|), blast E-value=1e-35, identity=92.79% 
               

               
               128-238, AGENCOURT_8753780 NIH_MGC_130 Mus musculus cDNA clone IMAGE 
(gb|BU148327.1|), blast E-value=1e-35, identity=92.79% 
               

               
               128-238, E0207A02-5 NIA Mouse Embryonic Stem (ES) cell (Lif-, 48 h, high 
(gb|CN685308.1|), blast E-value=1e-35, identity=92.79%

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


               
               128-238, DB216187 TRACH3 Homo sapiens cDNA clone TRACH3005152 5', mRNA 
(dbj|DB216187.1|), blast E-value=6e-38, identity=93.69% 
               

               
               128-238, DB284915 UTERU3 Homo sapiens cDNA clone UTERU3012993 5', mRNA 
(dbj|DB284915.1|), blast E-value=1e-35, identity=92.79% 
               

               
               80-194, DB793630 full-length enriched swine cDNA library, adult immature 
(dbj|DB793630.1|), blast E-value=1.96182e-44, identity=93.91% 
               

               
               128-238, id60d02.y1 Melton Normalized Mixed Mouse Pancreas 1 N1-MMS1 Mus 
(gb|BM022434.1|), blast E-value=1e-35, identity=92.79% 
               

               
               128-238, AGENCOURT_8753780 NIH_MGC_130 Mus musculus cDNA clone IMAGE 
(gb|BU148327.1|), blast E-value=1e-35, identity=92.79% 
               

               
               128-238, E0207A02-5 NIA Mouse Embryonic Stem (ES) cell (Lif-, 48 h, high 
(gb|CN685308.1|), blast E-value=1e-35, identity=92.79%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-504, gnl|bosTau2|chr1 (49529094-49529587)
               

               
               1-504, gnl|Hg17|chr3 (187987052-187987726)
               

               
               1-504, gnl|Mm7|chr16 (22769260-22769856)

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


               
               1-504, gnl|bosTau2|chr1 (49529094-49529587)
               

               
               1-504, gnl|Hg17|chr3 (187987052-187987726)
               

               
               1-504, gnl|Mm7|chr16 (22769260-22769856)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               cbl (0.344392)
               

               
               cty (0.10408)

Expressed library(ies): 2 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


               
               cbl (0.344392)
               

               
               cty (0.10408)

	80-238, + strand, RNAz p=0.999582
	393-504, - strand, RNAz p=0.976606

	121-259, - strand, RNAmicro p=0.998807
	229-299, + strand, RNAmicro p=0.997939
	130-218, + strand, RNAmicro p=0.997799

	128-238, DB216187 TRACH3 Homo sapiens cDNA clone TRACH3005152 5', mRNA (dbj\|DB216187.1\|), blast E-value=6e-38, identity=93.69%
	128-238, DB284915 UTERU3 Homo sapiens cDNA clone UTERU3012993 5', mRNA (dbj\|DB284915.1\|), blast E-value=1e-35, identity=92.79%
	80-194, DB793630 full-length enriched swine cDNA library, adult immature (dbj\|DB793630.1\|), blast E-value=1.96182e-44, identity=93.91%
	128-238, id60d02.y1 Melton Normalized Mixed Mouse Pancreas 1 N1-MMS1 Mus (gb\|BM022434.1\|), blast E-value=1e-35, identity=92.79%
	128-238, AGENCOURT_8753780 NIH_MGC_130 Mus musculus cDNA clone IMAGE (gb\|BU148327.1\|), blast E-value=1e-35, identity=92.79%
	128-238, E0207A02-5 NIA Mouse Embryonic Stem (ES) cell (Lif-, 48 h, high (gb\|CN685308.1\|), blast E-value=1e-35, identity=92.79%

	1-504, gnl\|bosTau2\|chr1 (49529094-49529587)
	1-504, gnl\|Hg17\|chr3 (187987052-187987726)
	1-504, gnl\|Mm7\|chr16 (22769260-22769856)