Non-Coding RNA Search

Ss1.1-pigcb_1852.5

Sequence:


               
               ATAGAGACCCCCGTTAGCCAGCCCTCGATCACTGAGGCCCCATTATTAACAGATGTCCCC
CATTGATAACCCCCCAAATACAGACCCTGTGTTACCCAGAAAGAGATTCCCTGAGTGTAG
CCCCTTCAGGCTAGTCCTCATCCCCAACCTCTCAGAGCAGACCCCCAATAACAGATTTCC
ACATCACCCCAAATGACAGTGACTTTCTCTACATAATGCTCCACACCAGAACATTCCTGA
GTCACTCGTCACTGGATCAGAACCCTTCCCTGCTAACAAAGACCCCTCCCATCAAGTCCC
CTTGAAAGAAACACCTCCGGAGCAACAGAGTAACAGCCGTACATTTAATATCAGTACCCT
CAAGATGTTGGGACCCCCCCGGTCACCCCAACAATCCTTACACTGCAATCAGAGACTCCC
TCCATTAACAAAAACCCGCTCTTATCCCTCAAGAAGAGACCCACATTACCCAGCCCACTC
TCACCCCCCAATTTACAGACACCAAAACAGTCCTGGAAGTGCTAATTACAGGACCCCCAA
GTCTTCCTATCCTCTGCACCCTCAAGAAACCCCCAGTGCCTTGTATGAAGCCCACCCCAT
GCGGCCCACAGCACCTGTGCTGGCCAGGCTCCCAGAAAATTCTCTATTTTTAAAGTAATT
ATTTCCCCCTTTGGGGGACCCCAAAATTTGGAGGCCCCATTCTGGGACTCTGAGGATCCC
AAACCCCAGAGTACATGTCCCAAACTCCCCTGTGCCCCCAAGTCCTACAACTCCTAGGAG
ACCCCAAAGCCCTAACTCACAGGACCCCCAAATCATGGATCCCGCAAATCCCCAGGGAAT
CCCAAATTTAAAAGTCCAATCCCAAGCTCCCAGGAAACCCCAATCACGGAGGTGCTTGCG
CCTGGAATGGAGGAGACTGTAGTTCAGGATATGCATCCTGGGCTCCCAGGGCACCTCAGG
CCCTATTCATAGGCACCAGGAGACCCCCAAAGAAATTCCCATTCCTGGAAACCAGAGGAC
TTTCAATGCCCTGAGTCTGGGGACCTCAGAACACCTAAATTCCAAGAGCCCCAGCCCCAA
AGGAACCCCAAGTCCTCAAGAATGAAAGGTGCCAGGGCCTTGAGGGGATCCCAAATCCTG
GAACCCCCATTTCAATCTACATTAAGGTCACAGGTCCATAACACCAAATATTTGTTACTG
GCCCGGAAGGACCTCACAGCACTCTGGCCAGACCAACAGCCGGACGGAGACCCTGAAGGC
CCAGGGGGTCCAGGGCAGACCCGGGGCCCTGAACACCAAGGACAGCTCACGACTGCCCCT
TCACTGCATGTCCCCACCGCATGACCCCTAACCCCTTCAATAAAGACGTTTCTATGGCAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ATAGAGACCCCCGTTAGCCAGCCCTCGATCACTGAGGCCCCATTATTAACAGATGTCCCC
CATTGATAACCCCCCAAATACAGACCCTGTGTTACCCAGAAAGAGATTCCCTGAGTGTAG
CCCCTTCAGGCTAGTCCTCATCCCCAACCTCTCAGAGCAGACCCCCAATAACAGATTTCC
ACATCACCCCAAATGACAGTGACTTTCTCTACATAATGCTCCACACCAGAACATTCCTGA
GTCACTCGTCACTGGATCAGAACCCTTCCCTGCTAACAAAGACCCCTCCCATCAAGTCCC
CTTGAAAGAAACACCTCCGGAGCAACAGAGTAACAGCCGTACATTTAATATCAGTACCCT
CAAGATGTTGGGACCCCCCCGGTCACCCCAACAATCCTTACACTGCAATCAGAGACTCCC
TCCATTAACAAAAACCCGCTCTTATCCCTCAAGAAGAGACCCACATTACCCAGCCCACTC
TCACCCCCCAATTTACAGACACCAAAACAGTCCTGGAAGTGCTAATTACAGGACCCCCAA
GTCTTCCTATCCTCTGCACCCTCAAGAAACCCCCAGTGCCTTGTATGAAGCCCACCCCAT
GCGGCCCACAGCACCTGTGCTGGCCAGGCTCCCAGAAAATTCTCTATTTTTAAAGTAATT
ATTTCCCCCTTTGGGGGACCCCAAAATTTGGAGGCCCCATTCTGGGACTCTGAGGATCCC
AAACCCCAGAGTACATGTCCCAAACTCCCCTGTGCCCCCAAGTCCTACAACTCCTAGGAG
ACCCCAAAGCCCTAACTCACAGGACCCCCAAATCATGGATCCCGCAAATCCCCAGGGAAT
CCCAAATTTAAAAGTCCAATCCCAAGCTCCCAGGAAACCCCAATCACGGAGGTGCTTGCG
CCTGGAATGGAGGAGACTGTAGTTCAGGATATGCATCCTGGGCTCCCAGGGCACCTCAGG
CCCTATTCATAGGCACCAGGAGACCCCCAAAGAAATTCCCATTCCTGGAAACCAGAGGAC
TTTCAATGCCCTGAGTCTGGGGACCTCAGAACACCTAAATTCCAAGAGCCCCAGCCCCAA
AGGAACCCCAAGTCCTCAAGAATGAAAGGTGCCAGGGCCTTGAGGGGATCCCAAATCCTG
GAACCCCCATTTCAATCTACATTAAGGTCACAGGTCCATAACACCAAATATTTGTTACTG
GCCCGGAAGGACCTCACAGCACTCTGGCCAGACCAACAGCCGGACGGAGACCCTGAAGGC
CCAGGGGGTCCAGGGCAGACCCGGGGCCCTGAACACCAAGGACAGCTCACGACTGCCCCT
TCACTGCATGTCCCCACCGCATGACCCCTAACCCCTTCAATAAAGACGTTTCTATGGCAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

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               560-1300, - strand, RNAz p=0.999485

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


               
               560-1300, - strand, RNAz p=0.999485

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               1131-1272, - strand, RNAmicro p=0.999999
               

               
               699-834, - strand, RNAmicro p=0.999944
               

               
               528-637, - strand, RNAmicro p=0.985942

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


               
               1131-1272, - strand, RNAmicro p=0.999999
               

               
               699-834, - strand, RNAmicro p=0.999944
               

               
               528-637, - strand, RNAmicro p=0.985942

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               560-1100, Oa_splbn_07D01_M13reverse Sheep spleen\brain pSport1 library Ovis 
(gb|CN824187.1|), blast E-value=0, identity=89.17% 
               

               
               560-1227, BovGen_20134 normal cattle brain Bos taurus cDNA clone 
(gb|CO891809.1|), blast E-value=2e-23, identity=88.39% 
               

               
               560-1204, 1184271 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN284022.1|), 
blast E-value=6e-17, identity=88.76% 
               

               
               560-1293, LB02813.CR_G08 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV909151.1|), 
blast E-value=8.00001e-41, identity=87.78% 
               

               
               560-1037, LB01819.CR_H05 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb|EE223190.1|), 
blast E-value=0, identity=89.63% 
               

               
               561-1300, LB02533.CR.1_L21 GC_BGC-25 Bos taurus cDNA clone IMAGE 
(gb|EE340510.1|), blast E-value=1.00053e-42, identity=87.7%

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


               
               560-1100, Oa_splbn_07D01_M13reverse Sheep spleen\brain pSport1 library Ovis 
(gb|CN824187.1|), blast E-value=0, identity=89.17% 
               

               
               560-1227, BovGen_20134 normal cattle brain Bos taurus cDNA clone 
(gb|CO891809.1|), blast E-value=2e-23, identity=88.39% 
               

               
               560-1204, 1184271 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN284022.1|), 
blast E-value=6e-17, identity=88.76% 
               

               
               560-1293, LB02813.CR_G08 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV909151.1|), 
blast E-value=8.00001e-41, identity=87.78% 
               

               
               560-1037, LB01819.CR_H05 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb|EE223190.1|), 
blast E-value=0, identity=89.63% 
               

               
               561-1300, LB02533.CR.1_L21 GC_BGC-25 Bos taurus cDNA clone IMAGE 
(gb|EE340510.1|), blast E-value=1.00053e-42, identity=87.7%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1378, gnl|bosTau2|chr18 (41807391-41806006)
               

               
               1-1378, gnl|Hg17|chr19 (41198794-41197403)
               

               
               1-1378, gnl|Mm7|chr7 (27248356-27249759)

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


               
               1-1378, gnl|bosTau2|chr18 (41807391-41806006)
               

               
               1-1378, gnl|Hg17|chr19 (41198794-41197403)
               

               
               1-1378, gnl|Mm7|chr7 (27248356-27249759)

Expressed library(ies): 9 entry(ies)

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Expressed library(ies): 9 entry(ies)

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               fcc (0.791139)
               

               
               fbs (0.701385)
               

               
               hyp (0.571347)
               

               
               ecc (0.46014)
               

               
               ebs (0.354904)
               

               
               nms (0.213858)
               

               
               cty (0.20816)
               

               
               nje (0.16592)
               

               
               cbr (0.127975)

Expressed library(ies): 9 entry(ies)

Help | Less info

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


               
               fcc (0.791139)
               

               
               fbs (0.701385)
               

               
               hyp (0.571347)
               

               
               ecc (0.46014)
               

               
               ebs (0.354904)
               

               
               nms (0.213858)
               

               
               cty (0.20816)
               

               
               nje (0.16592)
               

               
               cbr (0.127975)

	1131-1272, - strand, RNAmicro p=0.999999
	699-834, - strand, RNAmicro p=0.999944
	528-637, - strand, RNAmicro p=0.985942

	560-1100, Oa_splbn_07D01_M13reverse Sheep spleen\brain pSport1 library Ovis (gb\|CN824187.1\|), blast E-value=0, identity=89.17%
	560-1227, BovGen_20134 normal cattle brain Bos taurus cDNA clone (gb\|CO891809.1\|), blast E-value=2e-23, identity=88.39%
	560-1204, 1184271 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN284022.1\|), blast E-value=6e-17, identity=88.76%
	560-1293, LB02813.CR_G08 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb\|DV909151.1\|), blast E-value=8.00001e-41, identity=87.78%
	560-1037, LB01819.CR_H05 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb\|EE223190.1\|), blast E-value=0, identity=89.63%
	561-1300, LB02533.CR.1_L21 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb\|EE340510.1\|), blast E-value=1.00053e-42, identity=87.7%

	1-1378, gnl\|bosTau2\|chr18 (41807391-41806006)
	1-1378, gnl\|Hg17\|chr19 (41198794-41197403)
	1-1378, gnl\|Mm7\|chr7 (27248356-27249759)

	fcc (0.791139)
	fbs (0.701385)
	hyp (0.571347)
	ecc (0.46014)
	ebs (0.354904)
	nms (0.213858)
	cty (0.20816)
	nje (0.16592)
	cbr (0.127975)