Non-Coding RNA Search

Ss1.1-Lym1-jns70_A08.f.5

Sequence:


               
               CAGGCCCTCAGGCCCAGTGCCACCCTCAGCCTGGGGAGGGGTCGTCCCGCCTGTCTCTTA
TGCCTTATGGGAAGGCCCAGCCATAACTCGGGGCTATGCTGGCGCCGGGACCAGCTCAGG
CCTCCTCTGTAGGAAGCGGGTGACTGTGGGGGTGACACCTGCACCCCCAGCTCTTTGCAC
TCTCGGTGTGTGGTTTTGACTCTCTTTGCTTTTCTTGCTGGGTGGCCCCGTGGTCACCAT
CTCAGGGGGCACCGTGGGGAGAGCCCCACTGGTCCCCCACTCCTCCTGGGGATCTCACTC
CACTCGCCTGGCCTCTTTGCTGCCAGGCCTCCCCGGGGGACTGTGCTGGCCCACGGGTCA
TGCCAGAGGTGGGTGCCCCAGCCAGGGACTCCCGGGCTCCTGGTCAGGGGAGGTCCTGCC
CTGGAGTTCCCAGCGTGTGTCATTCATTGGTCTCTGTCCGTCCAGCTGTCCATGGGCAGA
AGTGGGGTCAGTGTGCGAGTGAGGGCAGGAGTATTTATGGAAATAAAACGTCCTTTTTCC
TGGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGGCCCTCAGGCCCAGTGCCACCCTCAGCCTGGGGAGGGGTCGTCCCGCCTGTCTCTTA
TGCCTTATGGGAAGGCCCAGCCATAACTCGGGGCTATGCTGGCGCCGGGACCAGCTCAGG
CCTCCTCTGTAGGAAGCGGGTGACTGTGGGGGTGACACCTGCACCCCCAGCTCTTTGCAC
TCTCGGTGTGTGGTTTTGACTCTCTTTGCTTTTCTTGCTGGGTGGCCCCGTGGTCACCAT
CTCAGGGGGCACCGTGGGGAGAGCCCCACTGGTCCCCCACTCCTCCTGGGGATCTCACTC
CACTCGCCTGGCCTCTTTGCTGCCAGGCCTCCCCGGGGGACTGTGCTGGCCCACGGGTCA
TGCCAGAGGTGGGTGCCCCAGCCAGGGACTCCCGGGCTCCTGGTCAGGGGAGGTCCTGCC
CTGGAGTTCCCAGCGTGTGTCATTCATTGGTCTCTGTCCGTCCAGCTGTCCATGGGCAGA
AGTGGGGTCAGTGTGCGAGTGAGGGCAGGAGTATTTATGGAAATAAAACGTCCTTTTTCC
TGGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

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               1-153, - strand, RNAz p=0.772574
               

               
               193-345, + strand, RNAz p=0.999983

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


               
               1-153, - strand, RNAz p=0.772574
               

               
               193-345, + strand, RNAz p=0.999983

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               234-359, + strand, RNAmicro p=0.999973

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


               
               234-359, + strand, RNAmicro p=0.999973

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               195-331, 958526 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK770363.1|), 
blast E-value=1e-20, identity=85.61% 
               

               
               195-331, BovGen_16330 normal cattle brain Bos taurus cDNA clone 
(gb|CO888005.1|), blast E-value=3e-18, identity=84.89% 
               

               
               195-331, LB0263.CR_D18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV878861.1|), 
blast E-value=3e-18, identity=84.89% 
               

               
               195-331, LB03022.CR_H21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV931355.1|), 
blast E-value=3e-18, identity=84.89% 
               

               
               253-345, PADT0811003_G17F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB412387.1|), blast E-value=8.99999e-40, identity=98.94% 
               

               
               193-320, PADT0811003_G17R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB412388.1|), 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


               
               195-331, 958526 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK770363.1|), 
blast E-value=1e-20, identity=85.61% 
               

               
               195-331, BovGen_16330 normal cattle brain Bos taurus cDNA clone 
(gb|CO888005.1|), blast E-value=3e-18, identity=84.89% 
               

               
               195-331, LB0263.CR_D18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV878861.1|), 
blast E-value=3e-18, identity=84.89% 
               

               
               195-331, LB03022.CR_H21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV931355.1|), 
blast E-value=3e-18, identity=84.89% 
               

               
               253-345, PADT0811003_G17F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB412387.1|), blast E-value=8.99999e-40, identity=98.94% 
               

               
               193-320, PADT0811003_G17R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB412388.1|), blast E-value=0, identity=100%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_001001560, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_001001560, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-544, gnl|bosTau2|chr5 (67324409-67323845)
               

               
               1-544, gnl|Hg17|chr22 (36353540-36354071)
               

               
               1-544, gnl|Mm7|chr15 (78977038-78977537)

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


               
               1-544, gnl|bosTau2|chr5 (67324409-67323845)
               

               
               1-544, gnl|Hg17|chr22 (36353540-36354071)
               

               
               1-544, gnl|Mm7|chr15 (78977038-78977537)

Expressed library(ies): 5 entry(ies)

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Expressed library(ies): 5 entry(ies)

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               elu (0.385356)
               

               
               ece (0.229305)
               

               
               pty (0.142714)
               

               
               cov (0.132153)
               

               
               sug (0.127291)

Expressed library(ies): 5 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)
               

               
               ece (0.229305)
               

               
               pty (0.142714)
               

               
               cov (0.132153)
               

               
               sug (0.127291)

	1-153, - strand, RNAz p=0.772574
	193-345, + strand, RNAz p=0.999983

	195-331, 958526 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK770363.1\|), blast E-value=1e-20, identity=85.61%
	195-331, BovGen_16330 normal cattle brain Bos taurus cDNA clone (gb\|CO888005.1\|), blast E-value=3e-18, identity=84.89%
	195-331, LB0263.CR_D18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV878861.1\|), blast E-value=3e-18, identity=84.89%
	195-331, LB03022.CR_H21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV931355.1\|), blast E-value=3e-18, identity=84.89%
	253-345, PADT0811003_G17F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB412387.1\|), blast E-value=8.99999e-40, identity=98.94%
	193-320, PADT0811003_G17R porcine adipose tissue cDNA library (PADT) Sus (gb\|EB412388.1\|), blast E-value=0, identity=100%

	1-544, gnl\|bosTau2\|chr5 (67324409-67323845)
	1-544, gnl\|Hg17\|chr22 (36353540-36354071)
	1-544, gnl\|Mm7\|chr15 (78977038-78977537)

	elu (0.385356)
	ece (0.229305)
	pty (0.142714)
	cov (0.132153)
	sug (0.127291)