Non-Coding RNA Search

Ss1.1-Pig1-46D03.5

Sequence:


               
               GAGCAGATCCTGGCCTCCATCCTGACAGAGTCTGTGCTGGTGAACTTCTTTGAGAAGAGG
GTAGACATTGGACTCAAGATCAAGGACCACAGGAAGGTAGAGAGACAGTTTAGCACCTCC
AGTGACCATGAGCAGTCTGTGGTTTTGGGCTGAGGGCTCCAAGGCCTGCAGACTGGTCTC
TCTTCCCTCCTTCCCTTTGTTTTCTCCTTAAGGACACATCCCTCCAGTTCTCCCCAGAAT
TGAGTTGTAAATAGAAAGAAGGCTGAACAGTCACAGTTGGGGCCAAGGCAGGGGGTGCCC
AGCCCCTCATCCTGCCTTGGGCCTCCTGGGCCCTGCAGTGTCGGGGGCTCTATGATCTGC
CCTTGCTTGCCCTGCACTGTGGCCAGGCCACACCCTGTCCTCCTCCTCCTTCTCCCCTGC
AGCTGCGTGCTCTTGGGGCTTTCCTGCCACTGGGCACCAGGTAGGGAGGTGGTGTGCCTG
TTGGGCACCAACGTGGTGAGAGCTTCGAGATGCCTTCCAGGAGCCCTGAGCCTGCTTCTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGCAGATCCTGGCCTCCATCCTGACAGAGTCTGTGCTGGTGAACTTCTTTGAGAAGAGG
GTAGACATTGGACTCAAGATCAAGGACCACAGGAAGGTAGAGAGACAGTTTAGCACCTCC
AGTGACCATGAGCAGTCTGTGGTTTTGGGCTGAGGGCTCCAAGGCCTGCAGACTGGTCTC
TCTTCCCTCCTTCCCTTTGTTTTCTCCTTAAGGACACATCCCTCCAGTTCTCCCCAGAAT
TGAGTTGTAAATAGAAAGAAGGCTGAACAGTCACAGTTGGGGCCAAGGCAGGGGGTGCCC
AGCCCCTCATCCTGCCTTGGGCCTCCTGGGCCCTGCAGTGTCGGGGGCTCTATGATCTGC
CCTTGCTTGCCCTGCACTGTGGCCAGGCCACACCCTGTCCTCCTCCTCCTTCTCCCCTGC
AGCTGCGTGCTCTTGGGGCTTTCCTGCCACTGGGCACCAGGTAGGGAGGTGGTGTGCCTG
TTGGGCACCAACGTGGTGAGAGCTTCGAGATGCCTTCCAGGAGCCCTGAGCCTGCTTCTG

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

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

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               176-371, - strand, RNAz p=0.996199

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


               
               176-371, - strand, RNAz p=0.996199

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               296-454, - strand, RNAmicro p=0.962895
               

               
               365-425, + strand, RNAmicro p=0.908609

Predicted microRNA(s): 2 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


               
               296-454, - strand, RNAmicro p=0.962895
               

               
               365-425, + strand, RNAmicro p=0.908609

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               176-371, 101352 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW652908.1|), 
blast E-value=0, identity=100% 
               

               
               176-371, 103416 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW654140.1|), 
blast E-value=0, identity=100% 
               

               
               178-371, 001003BEMN034471HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY207627.1|), blast E-value=0, identity=100% 
               

               
               178-371, LB0217.CR_L24 GC_BGC-21 Bos taurus cDNA clone IMAGE (gb|EE237423.1|), 
blast E-value=0, identity=100% 
               

               
               178-371, LB02958.CR_K05 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357277.1|), 
blast E-value=0, identity=100% 
               

               
               178-371, LB03070.CR_O11 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE382890.1|), 
blast E-value=0, identity=100%

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


               
               176-371, 101352 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW652908.1|), 
blast E-value=0, identity=100% 
               

               
               176-371, 103416 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW654140.1|), 
blast E-value=0, identity=100% 
               

               
               178-371, 001003BEMN034471HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY207627.1|), blast E-value=0, identity=100% 
               

               
               178-371, LB0217.CR_L24 GC_BGC-21 Bos taurus cDNA clone IMAGE (gb|EE237423.1|), 
blast E-value=0, identity=100% 
               

               
               178-371, LB02958.CR_K05 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357277.1|), 
blast E-value=0, identity=100% 
               

               
               178-371, LB03070.CR_O11 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE382890.1|), 
blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-540, gnl|bosTau2|chr7 (607600-607061)
               

               
               1-540, gnl|Hg17|chr5 (179223206-179222551)
               

               
               1-540, gnl|Mm7|chr11 (50128012-50128587)

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


               
               1-540, gnl|bosTau2|chr7 (607600-607061)
               

               
               1-540, gnl|Hg17|chr5 (179223206-179222551)
               

               
               1-540, gnl|Mm7|chr11 (50128012-50128587)

	296-454, - strand, RNAmicro p=0.962895
	365-425, + strand, RNAmicro p=0.908609

	176-371, 101352 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW652908.1\|), blast E-value=0, identity=100%
	176-371, 103416 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW654140.1\|), blast E-value=0, identity=100%
	178-371, 001003BEMN034471HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY207627.1\|), blast E-value=0, identity=100%
	178-371, LB0217.CR_L24 GC_BGC-21 Bos taurus cDNA clone IMAGE (gb\|EE237423.1\|), blast E-value=0, identity=100%
	178-371, LB02958.CR_K05 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE357277.1\|), blast E-value=0, identity=100%
	178-371, LB03070.CR_O11 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE382890.1\|), blast E-value=0, identity=100%

	1-540, gnl\|bosTau2\|chr7 (607600-607061)
	1-540, gnl\|Hg17\|chr5 (179223206-179222551)
	1-540, gnl\|Mm7\|chr11 (50128012-50128587)