Non-Coding RNA Search

Ss1.1-Pig4-TMW8031N22.3

Sequence:


               
               CCGTGCTCCATGCGGGGTCTCCCACCCCCAGGGATCTGTACTTGGGGTATCCCTGCAGGC
CCCACTTTCTCTTCGGATGTCCAGGGCCCCTGGCCCTCACCCCAGGCTCCCTTTGCCTGC
AGTGCAGCTAGCGCCGGCCTTGGCGCCCAGAGAAGTGTCCTCGCGGCCCTTCCGGAGCCC
TCTGACCCAGGGCTTCGGGCTCGGGCCCTTCCATCCCGCCCTCTTCCCACCTCCAGAGCC
TGTGACCTGGGGTCCAAGGGGGCGAGGACACAGAATGGCTCCGCAGAAGCCACAGCCAGG
TCGGGGTCAGCCGGCCTGTAGGCTCGGCCCTATCCCCCCATCCAGGTTCAGACGTTTGTC
CTGGTTGGGAGGGATGCCTAAGATTCTGTAACAATCGGACCCTTCCCCAAAGTGCCCCCC
CACCTGCCAAACAGTGCCAGCCGGTCCCTGGCCGCTTGGCGCAGGCGGACTCGGGACCTC
CAGGCCGCAAGAGGGCGCTGGAGCCCAGGGGCTTCCACACAGCACCTGCAGGTGTTGGGG
CTGCCCCTGTGGAAACGCTCTTTGACGGTCTTCCACGCTTTTGTGTCTGAGCCTGGTGCT
GCTGGGAGCTGCTGCGTTTGGAAATTAACCCACTAACCAGTATGTAGCTCCCGGGGAGGG
GAGGGCGGGAACCAGCGCAGACCAGCCAGGAGGGACCGGACCATCGGGTCGCCATGGCAG
CAAGGGCCCCCGCCTGAGGCCCTTGCTGAGAACACGCGGGCCCTGAGGGCCACTGTCCCT
TCCCAGAGGCAGAAGGGATCCATAGGGAACGGATCTGAATTTTTATCATGTGGCTTCTCC
TCCCCTACAATTTTGGAAATAAATGAAGTAATTTTAAGGGGAGGGTGGGGAGCCTGGTGC
TGTTGGGAGCTGCTGCGTTTGGAAATTAACCCACTAACCAATATGTAGCTCCCGGGGAGG
TGAGGGCGGGAACCAGCGCAGACCAGCCAGGAGGGACCGGACCATCGGGTCGCCATGGCA
GCAAGGGCCCCCGCCTGAGGCCCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCGTGCTCCATGCGGGGTCTCCCACCCCCAGGGATCTGTACTTGGGGTATCCCTGCAGGC
CCCACTTTCTCTTCGGATGTCCAGGGCCCCTGGCCCTCACCCCAGGCTCCCTTTGCCTGC
AGTGCAGCTAGCGCCGGCCTTGGCGCCCAGAGAAGTGTCCTCGCGGCCCTTCCGGAGCCC
TCTGACCCAGGGCTTCGGGCTCGGGCCCTTCCATCCCGCCCTCTTCCCACCTCCAGAGCC
TGTGACCTGGGGTCCAAGGGGGCGAGGACACAGAATGGCTCCGCAGAAGCCACAGCCAGG
TCGGGGTCAGCCGGCCTGTAGGCTCGGCCCTATCCCCCCATCCAGGTTCAGACGTTTGTC
CTGGTTGGGAGGGATGCCTAAGATTCTGTAACAATCGGACCCTTCCCCAAAGTGCCCCCC
CACCTGCCAAACAGTGCCAGCCGGTCCCTGGCCGCTTGGCGCAGGCGGACTCGGGACCTC
CAGGCCGCAAGAGGGCGCTGGAGCCCAGGGGCTTCCACACAGCACCTGCAGGTGTTGGGG
CTGCCCCTGTGGAAACGCTCTTTGACGGTCTTCCACGCTTTTGTGTCTGAGCCTGGTGCT
GCTGGGAGCTGCTGCGTTTGGAAATTAACCCACTAACCAGTATGTAGCTCCCGGGGAGGG
GAGGGCGGGAACCAGCGCAGACCAGCCAGGAGGGACCGGACCATCGGGTCGCCATGGCAG
CAAGGGCCCCCGCCTGAGGCCCTTGCTGAGAACACGCGGGCCCTGAGGGCCACTGTCCCT
TCCCAGAGGCAGAAGGGATCCATAGGGAACGGATCTGAATTTTTATCATGTGGCTTCTCC
TCCCCTACAATTTTGGAAATAAATGAAGTAATTTTAAGGGGAGGGTGGGGAGCCTGGTGC
TGTTGGGAGCTGCTGCGTTTGGAAATTAACCCACTAACCAATATGTAGCTCCCGGGGAGG
TGAGGGCGGGAACCAGCGCAGACCAGCCAGGAGGGACCGGACCATCGGGTCGCCATGGCA
GCAAGGGCCCCCGCCTGAGGCCCT

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

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

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               15-211, - strand, RNAz p=0.998595

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


               
               15-211, - strand, RNAz p=0.998595

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               55-113, LB02721.CR_B13 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV891670.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               55-113, LB02723.CR_F22 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV892341.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               55-113, LB02816.CR_H01 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV910077.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               55-113, LB03019.CR_I21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV930399.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               55-113, 001003BEMN034640HT BEMN Bos taurus cDNA, mRNA sequence (gb|DY055020.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               51-113, sh2P0042C07_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, 
(gb|DY501897.1|), blast E-value=0.00000000001, identity=92.06%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               55-113, LB02721.CR_B13 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV891670.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               55-113, LB02723.CR_F22 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV892341.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               55-113, LB02816.CR_H01 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV910077.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               55-113, LB03019.CR_I21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV930399.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               55-113, 001003BEMN034640HT BEMN Bos taurus cDNA, mRNA sequence (gb|DY055020.1|), 
blast E-value=0.00000000001, identity=93.22% 
               

               
               51-113, sh2P0042C07_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, 
(gb|DY501897.1|), blast E-value=0.00000000001, identity=92.06%

Aligned organism(s): 4 entry(ies)

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Aligned organism(s): 4 entry(ies)

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               15-300, gnl|bosTau2|chr14 (20546530-20546255)
               

               
               15-300, gnl|Hg17|chr11 (61390280-61390544)
               


               
               606-876, gnl|bosTau2|chr14 (20545672-20545402)
               

               
               606-876, gnl|Hg17|chr11 (61391106-61391396)

Aligned organism(s): 4 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


               
               15-300, gnl|bosTau2|chr14 (20546530-20546255)
               

               
               15-300, gnl|Hg17|chr11 (61390280-61390544)
               


               
               606-876, gnl|bosTau2|chr14 (20545672-20545402)
               

               
               606-876, gnl|Hg17|chr11 (61391106-61391396)

Expressed library(ies): 10 entry(ies)

More info

Expressed library(ies): 10 entry(ies)

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               cov (0.396458)
               

               
               fbs (0.350693)
               

               
               nms (0.213858)
               

               
               gul (0.177588)
               

               
               fhi (0.169578)
               

               
               cli (0.152812)
               

               
               lnt (0.142308)
               

               
               ebs (0.118301)
               

               
               med (0.116252)
               

               
               eje (0.0988338)

Expressed library(ies): 10 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


               
               cov (0.396458)
               

               
               fbs (0.350693)
               

               
               nms (0.213858)
               

               
               gul (0.177588)
               

               
               fhi (0.169578)
               

               
               cli (0.152812)
               

               
               lnt (0.142308)
               

               
               ebs (0.118301)
               

               
               med (0.116252)
               

               
               eje (0.0988338)

	55-113, LB02721.CR_B13 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|DV891670.1\|), blast E-value=0.00000000001, identity=93.22%
	55-113, LB02723.CR_F22 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|DV892341.1\|), blast E-value=0.00000000001, identity=93.22%
	55-113, LB02816.CR_H01 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb\|DV910077.1\|), blast E-value=0.00000000001, identity=93.22%
	55-113, LB03019.CR_I21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV930399.1\|), blast E-value=0.00000000001, identity=93.22%
	55-113, 001003BEMN034640HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY055020.1\|), blast E-value=0.00000000001, identity=93.22%
	51-113, sh2P0042C07_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, (gb\|DY501897.1\|), blast E-value=0.00000000001, identity=92.06%

	15-300, gnl\|bosTau2\|chr14 (20546530-20546255)
	15-300, gnl\|Hg17\|chr11 (61390280-61390544)

	606-876, gnl\|bosTau2\|chr14 (20545672-20545402)
	606-876, gnl\|Hg17\|chr11 (61391106-61391396)

	cov (0.396458)
	fbs (0.350693)
	nms (0.213858)
	gul (0.177588)
	fhi (0.169578)
	cli (0.152812)
	lnt (0.142308)
	ebs (0.118301)
	med (0.116252)
	eje (0.0988338)