Non-Coding RNA Search

Ss1.1-rfhi4014b_j24.5

Sequence:


               
               CAGCCTCAGCCTCTTTCTAAGGGACTTCCTCAGCACATTTGTATTTTTATATCCGACTCT
TTGTTTACTGATTCCCCTCATGGTTCGTACCCTCCCCCCACAGTCTCGGCCACGCTCCTC
TGCGCCTGGCAGATAGGATGGGTGTTGAGGCTGGGATGGGACAAGCCCCCAACATGGTAA
CCAACCACAGAGCCAGTCTGCCCATGCCTGACCCCAGGAGGCTCTCCGGCAGACCCCTTC
CCTCAAGGTATCACCTTCCAAGGGCCCAGGTCTGATTTTACCTTGGACCCCTGTATTCTG
CCCCTGGGAACCCAACTGGGGCTGCTCTGCATCTTTGGATGACACCTGTGGCCCTGGAGA
TGTTCTCAACCCAGGGGTGTCCTTTGTAAATGTTCCTCCATCCTCACTGTACCAGGAGTG
TGTGAATAAACACAGACCTCCCTGTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGCCTCAGCCTCTTTCTAAGGGACTTCCTCAGCACATTTGTATTTTTATATCCGACTCT
TTGTTTACTGATTCCCCTCATGGTTCGTACCCTCCCCCCACAGTCTCGGCCACGCTCCTC
TGCGCCTGGCAGATAGGATGGGTGTTGAGGCTGGGATGGGACAAGCCCCCAACATGGTAA
CCAACCACAGAGCCAGTCTGCCCATGCCTGACCCCAGGAGGCTCTCCGGCAGACCCCTTC
CCTCAAGGTATCACCTTCCAAGGGCCCAGGTCTGATTTTACCTTGGACCCCTGTATTCTG
CCCCTGGGAACCCAACTGGGGCTGCTCTGCATCTTTGGATGACACCTGTGGCCCTGGAGA
TGTTCTCAACCCAGGGGTGTCCTTTGTAAATGTTCCTCCATCCTCACTGTACCAGGAGTG
TGTGAATAAACACAGACCTCCCTGTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAA

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

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

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               159-390, - strand, RNAz p=0.997122

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


               
               159-390, - strand, RNAz p=0.997122

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               236-340, - strand, RNAmicro p=0.933639

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


               
               236-340, - strand, RNAmicro p=0.933639

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               160-390, BY797569 Homo sapiens eye Homo sapiens cDNA clone HE2628.seq 5', 
(dbj|BY797569.2|), blast E-value=0, identity=88.56% 
               

               
               159-390, 693095 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB442512.1|), 
blast E-value=0, identity=89.83% 
               

               
               159-390, BovGen_13983 normal cattle brain Bos taurus cDNA clone 
(gb|CO885658.1|), blast E-value=0, identity=90.25% 
               

               
               159-390, 1153940 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN274892.1|), 
blast E-value=0, identity=90.25% 
               

               
               161-390, GL-Cf-12250 GLGC-LIB0001-cf Canis familiaris Normalized Mixed 
(gb|DN755454.1|), blast E-value=0, identity=91.34% 
               

               
               159-390, LB0048.CR_I18 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT830767.1|), 
blast E-value=0, identity=90.25%

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


               
               160-390, BY797569 Homo sapiens eye Homo sapiens cDNA clone HE2628.seq 5', 
(dbj|BY797569.2|), blast E-value=0, identity=88.56% 
               

               
               159-390, 693095 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB442512.1|), 
blast E-value=0, identity=89.83% 
               

               
               159-390, BovGen_13983 normal cattle brain Bos taurus cDNA clone 
(gb|CO885658.1|), blast E-value=0, identity=90.25% 
               

               
               159-390, 1153940 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN274892.1|), 
blast E-value=0, identity=90.25% 
               

               
               161-390, GL-Cf-12250 GLGC-LIB0001-cf Canis familiaris Normalized Mixed 
(gb|DN755454.1|), blast E-value=0, identity=91.34% 
               

               
               159-390, LB0048.CR_I18 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT830767.1|), 
blast E-value=0, identity=90.25%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-446, gnl|bosTau2|chr1 (51212763-51213213)
               

               
               1-446, gnl|Hg17|chr3 (185460152-185459709)
               

               
               1-446, gnl|Mm7|chr16 (20169687-20169244)

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


               
               1-446, gnl|bosTau2|chr1 (51212763-51213213)
               

               
               1-446, gnl|Hg17|chr3 (185460152-185459709)
               

               
               1-446, gnl|Mm7|chr16 (20169687-20169244)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               fhi (0.508733)
               

               
               fcc (0.39557)
               

               
               ebs (0.236602)
               

               
               fbs (0.175346)
               

               
               cag (0.151194)
               

               
               lnt (0.142308)

Expressed library(ies): 6 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


               
               fhi (0.508733)
               

               
               fcc (0.39557)
               

               
               ebs (0.236602)
               

               
               fbs (0.175346)
               

               
               cag (0.151194)
               

               
               lnt (0.142308)

	160-390, BY797569 Homo sapiens eye Homo sapiens cDNA clone HE2628.seq 5', (dbj\|BY797569.2\|), blast E-value=0, identity=88.56%
	159-390, 693095 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB442512.1\|), blast E-value=0, identity=89.83%
	159-390, BovGen_13983 normal cattle brain Bos taurus cDNA clone (gb\|CO885658.1\|), blast E-value=0, identity=90.25%
	159-390, 1153940 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN274892.1\|), blast E-value=0, identity=90.25%
	161-390, GL-Cf-12250 GLGC-LIB0001-cf Canis familiaris Normalized Mixed (gb\|DN755454.1\|), blast E-value=0, identity=91.34%
	159-390, LB0048.CR_I18 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb\|DT830767.1\|), blast E-value=0, identity=90.25%

	1-446, gnl\|bosTau2\|chr1 (51212763-51213213)
	1-446, gnl\|Hg17\|chr3 (185460152-185459709)
	1-446, gnl\|Mm7\|chr16 (20169687-20169244)

	fhi (0.508733)
	fcc (0.39557)
	ebs (0.236602)
	fbs (0.175346)
	cag (0.151194)
	lnt (0.142308)