Non-Coding RNA Search

Ss1.1-rsug23_l14.5

Sequence:


               
               CGATTAAGCACTAAAAACAAATTTATAGCCAATATAGAACTAACTGCCTACTACCAGCTA
GAGGTTCCAGCCTAAGGGTCACAAGTTGTTAGTGCTCCCAGAGGTTTTATAGAGAGAATC
TGCAGTGGCAGTAATGTTGGACTAGATAATCTCATTCCCTATCAATTTCTAGGATTGTAT
GAATTAGGAATTCAACCAGATTATTTTCTAGTACTGATTAGCTATTTTATCATGCTGTCA
TGTCTAGATTCAGTACTTAATAATACTTTCTTTTGTTTCCTGGGCCAATCTCCAATTTCT
CTGAGTTATTTAAAAGATAAGGCCAATATTCTCTAATCCTGCAATTTCAGGAATTCTAGA
TCCTAATTCTGCAAATTCTAGGATCCTAATTAATATGGCTTTAAGAGTTCTATACTTCCC
TTTCTCCTTTTTGGAATTTGTGCAATTAACTTTTTCCCCCCAGCTTCTGGGTTCTGTTTA
TTTCATAACAGTGATGAGTACATTTGAGATCAATACTACCAGAAATCAAGACATATGCAG
ACAGCTACTTTTGATCCTCCTATGACTTAATTGAAAAACTTCATTTCTTATCTTATATTT
GAAATGTCCTGAAACACTGAAGTGGAAGCGGAGAGAGCAAGACATGTTGCAGGATCTTTA
AACAATGTCAAGCTATATAATCTTAATATAGAAGTGAACACTTTCTCTAAAATTTCTAGT
AACTACTCACTTAAATCATGCATTCCTGTTTTTTTCCTAACTGGTGGTGGAAGGAAATAG
TTGACCTGTGATTCCACCCCTCCTCCCCCCAATTTATTATTACAAAGGTGGTACTGTGGT
GCTGAAGATTATGAATACCAATCCCCAGGAAGTTTATATATCATTAGGGCTCTCTAGCTT
ATAATAATTTAAAAATGCCTCTCCATTTGCAATGCTTGGAAGTAAAAAACAAGAAAGTAA
CTTTTTTCTTATTTCATCATTGTGCAGGCATCTATAATAAAAAAATGAAAGTTTTTAACT
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CGATTAAGCACTAAAAACAAATTTATAGCCAATATAGAACTAACTGCCTACTACCAGCTA
GAGGTTCCAGCCTAAGGGTCACAAGTTGTTAGTGCTCCCAGAGGTTTTATAGAGAGAATC
TGCAGTGGCAGTAATGTTGGACTAGATAATCTCATTCCCTATCAATTTCTAGGATTGTAT
GAATTAGGAATTCAACCAGATTATTTTCTAGTACTGATTAGCTATTTTATCATGCTGTCA
TGTCTAGATTCAGTACTTAATAATACTTTCTTTTGTTTCCTGGGCCAATCTCCAATTTCT
CTGAGTTATTTAAAAGATAAGGCCAATATTCTCTAATCCTGCAATTTCAGGAATTCTAGA
TCCTAATTCTGCAAATTCTAGGATCCTAATTAATATGGCTTTAAGAGTTCTATACTTCCC
TTTCTCCTTTTTGGAATTTGTGCAATTAACTTTTTCCCCCCAGCTTCTGGGTTCTGTTTA
TTTCATAACAGTGATGAGTACATTTGAGATCAATACTACCAGAAATCAAGACATATGCAG
ACAGCTACTTTTGATCCTCCTATGACTTAATTGAAAAACTTCATTTCTTATCTTATATTT
GAAATGTCCTGAAACACTGAAGTGGAAGCGGAGAGAGCAAGACATGTTGCAGGATCTTTA
AACAATGTCAAGCTATATAATCTTAATATAGAAGTGAACACTTTCTCTAAAATTTCTAGT
AACTACTCACTTAAATCATGCATTCCTGTTTTTTTCCTAACTGGTGGTGGAAGGAAATAG
TTGACCTGTGATTCCACCCCTCCTCCCCCCAATTTATTATTACAAAGGTGGTACTGTGGT
GCTGAAGATTATGAATACCAATCCCCAGGAAGTTTATATATCATTAGGGCTCTCTAGCTT
ATAATAATTTAAAAATGCCTCTCCATTTGCAATGCTTGGAAGTAAAAAACAAGAAAGTAA
CTTTTTTCTTATTTCATCATTGTGCAGGCATCTATAATAAAAAAATGAAAGTTTTTAACT
AAAAAAAAAAAA

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

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

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               41-153, - strand, RNAz p=0.746879
               

               
               267-462, - strand, RNAz p=0.991325

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


               
               41-153, - strand, RNAz p=0.746879
               

               
               267-462, - strand, RNAz p=0.991325

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               78-148, + strand, RNAmicro p=0.967873

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


               
               78-148, + strand, RNAmicro p=0.967873

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               303-462, DB813328 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813328.1|), blast E-value=0, identity=100% 
               

               
               314-455, 65130 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW485341.1|), 
blast E-value=2e-32, identity=88.03% 
               

               
               314-455, BovGen_25047 normal cattle brain Bos taurus cDNA clone 
(gb|CO896722.1|), blast E-value=2e-32, identity=88.03% 
               

               
               349-455, UMC-bcl_0A02-010-f05 Day 14 CL from a non-pregnant animal bcl Bos 
(gb|CV974943.1|), blast E-value=6e-26, identity=89.72% 
               

               
               334-455, UMC-bcl_0A02-017-f04 Day 14 CL from a pregnant animal bcl Bos 
(gb|CV975362.1|), blast E-value=3e-25, identity=87.7% 
               

               
               314-455, UMC-bcl_0B01-011-e10 Day 14 CL from a pregnant animal bcl Bos 
(gb|CV975790.1|), blast E-value=2e-32, identity=88.03%

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


               
               303-462, DB813328 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813328.1|), blast E-value=0, identity=100% 
               

               
               314-455, 65130 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW485341.1|), 
blast E-value=2e-32, identity=88.03% 
               

               
               314-455, BovGen_25047 normal cattle brain Bos taurus cDNA clone 
(gb|CO896722.1|), blast E-value=2e-32, identity=88.03% 
               

               
               349-455, UMC-bcl_0A02-010-f05 Day 14 CL from a non-pregnant animal bcl Bos 
(gb|CV974943.1|), blast E-value=6e-26, identity=89.72% 
               

               
               334-455, UMC-bcl_0A02-017-f04 Day 14 CL from a pregnant animal bcl Bos 
(gb|CV975362.1|), blast E-value=3e-25, identity=87.7% 
               

               
               314-455, UMC-bcl_0B01-011-e10 Day 14 CL from a pregnant animal bcl Bos 
(gb|CV975790.1|), blast E-value=2e-32, identity=88.03%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               3-907, gnl|bosTau2|chr20 (18810920-18811820)
               

               
               3-907, gnl|Hg17|chr5 (43324872-43324035)

Aligned organism(s): 2 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


               
               3-907, gnl|bosTau2|chr20 (18810920-18811820)
               

               
               3-907, gnl|Hg17|chr5 (43324872-43324035)

Expressed library(ies): 14 entry(ies)

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Expressed library(ies): 14 entry(ies)

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               fbs (0.701385)
               

               
               mgm (0.541028)
               

               
               spc (0.340097)
               

               
               vin (0.332557)
               

               
               ski (0.29347)
               

               
               sug (0.254582)
               

               
               fcc (0.197785)
               

               
               ton (0.1755)
               

               
               rec (0.17307)
               

               
               mga (0.160205)
               

               
               cli (0.152812)
               

               
               bfe (0.149858)
               

               
               ebs (0.118301)
               

               
               jej (0.0989218)

Expressed library(ies): 14 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


               
               fbs (0.701385)
               

               
               mgm (0.541028)
               

               
               spc (0.340097)
               

               
               vin (0.332557)
               

               
               ski (0.29347)
               

               
               sug (0.254582)
               

               
               fcc (0.197785)
               

               
               ton (0.1755)
               

               
               rec (0.17307)
               

               
               mga (0.160205)
               

               
               cli (0.152812)
               

               
               bfe (0.149858)
               

               
               ebs (0.118301)
               

               
               jej (0.0989218)

	41-153, - strand, RNAz p=0.746879
	267-462, - strand, RNAz p=0.991325

	303-462, DB813328 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB813328.1\|), blast E-value=0, identity=100%
	314-455, 65130 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW485341.1\|), blast E-value=2e-32, identity=88.03%
	314-455, BovGen_25047 normal cattle brain Bos taurus cDNA clone (gb\|CO896722.1\|), blast E-value=2e-32, identity=88.03%
	349-455, UMC-bcl_0A02-010-f05 Day 14 CL from a non-pregnant animal bcl Bos (gb\|CV974943.1\|), blast E-value=6e-26, identity=89.72%
	334-455, UMC-bcl_0A02-017-f04 Day 14 CL from a pregnant animal bcl Bos (gb\|CV975362.1\|), blast E-value=3e-25, identity=87.7%
	314-455, UMC-bcl_0B01-011-e10 Day 14 CL from a pregnant animal bcl Bos (gb\|CV975790.1\|), blast E-value=2e-32, identity=88.03%

	3-907, gnl\|bosTau2\|chr20 (18810920-18811820)
	3-907, gnl\|Hg17\|chr5 (43324872-43324035)

	fbs (0.701385)
	mgm (0.541028)
	spc (0.340097)
	vin (0.332557)
	ski (0.29347)
	sug (0.254582)
	fcc (0.197785)
	ton (0.1755)
	rec (0.17307)
	mga (0.160205)
	cli (0.152812)
	bfe (0.149858)
	ebs (0.118301)
	jej (0.0989218)