Non-Coding RNA Search

Ss1.1-OvF6-UMC-p6mm3-010-c06.3

Sequence:


               
               GTTAGACCCAGCTGGGATCTCTGTCACTCCTGCCCCCATTCCCTCTGGGATCCCTCCCCA
GGTGCTGTTCTGATTGGCCTTTTGTCACCACAGGGGTGACTGTTGGCGACGGGAGTCAGC
AGTGTTTGGATTCTTACACTCCAGTCAGTCCCCTCACCCGTGAAGCGGAGCCGGGTTCCT
TTTCCCTTCTCCAGTCCTGCCTGTCCCCCCGCTTCCCGGCTGGGGGCCCGGACTCTTCTT
GCTCTACTTCTGGACATCTCTGTGTTGTAATTATGTACAGAGGACCTGGTCGGCCCAGGG
TGGGGGTGTTCGCTCTGTCTTCTGTCCTTTGGTTCTTCCTCCACAGTGGTCTTGCACTCT
AGTTTATTTAAAGGGACACGCACTGGAACAGGAAATGTCCCTCACTTCCCAGCCACCTCC
TTCCTCTTCACCCACCTGTTTCTGTATTCTCAGGCCTCCTCTGCTTTGTCTCACCAGCCT
CCCCCCCTGCTTTCGCCTTGTTCCCTTCCAGCCTTCCAGCCCCTACCTGGGTAAGGGGGT
CTTCCCTTGAGCTCCAGGGGGTGGAACCCAATGTTTACATTTTCTTCTGTCTCTGCCCCC
ACCCCATGCGGCGCTTTGAGGAACCGGAAAAGAACCTGCTGTTGTACC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTTAGACCCAGCTGGGATCTCTGTCACTCCTGCCCCCATTCCCTCTGGGATCCCTCCCCA
GGTGCTGTTCTGATTGGCCTTTTGTCACCACAGGGGTGACTGTTGGCGACGGGAGTCAGC
AGTGTTTGGATTCTTACACTCCAGTCAGTCCCCTCACCCGTGAAGCGGAGCCGGGTTCCT
TTTCCCTTCTCCAGTCCTGCCTGTCCCCCCGCTTCCCGGCTGGGGGCCCGGACTCTTCTT
GCTCTACTTCTGGACATCTCTGTGTTGTAATTATGTACAGAGGACCTGGTCGGCCCAGGG
TGGGGGTGTTCGCTCTGTCTTCTGTCCTTTGGTTCTTCCTCCACAGTGGTCTTGCACTCT
AGTTTATTTAAAGGGACACGCACTGGAACAGGAAATGTCCCTCACTTCCCAGCCACCTCC
TTCCTCTTCACCCACCTGTTTCTGTATTCTCAGGCCTCCTCTGCTTTGTCTCACCAGCCT
CCCCCCCTGCTTTCGCCTTGTTCCCTTCCAGCCTTCCAGCCCCTACCTGGGTAAGGGGGT
CTTCCCTTGAGCTCCAGGGGGTGGAACCCAATGTTTACATTTTCTTCTGTCTCTGCCCCC
ACCCCATGCGGCGCTTTGAGGAACCGGAAAAGAACCTGCTGTTGTACC

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

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

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               92-250, - strand, RNAz p=0.997494
               

               
               491-606, - strand, RNAz p=0.663622

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


               
               92-250, - strand, RNAz p=0.997494
               

               
               491-606, - strand, RNAz p=0.663622

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               92-159, CJ007915 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ007915.1|), blast E-value=5e-20, identity=95.59% 
               

               
               92-250, DB816966 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|DB816966.1|), blast E-value=0, identity=98.74% 
               

               
               92-250, DB819469 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819469.1|), blast E-value=0, identity=98.11% 
               

               
               111-250, 4102499 BARC 10BOV Bos taurus cDNA clone 10BOV9_H10 5', mRNA 
(gb|CK961198.1|), blast E-value=5e-17, identity=84.29% 
               

               
               111-250, UMC-bemiv_0B02-010-f09 In vitro derived blastocysts Day 8 bemiv Bos 
(gb|CV980908.1|), blast E-value=5e-17, identity=84.29% 
               

               
               111-250, LB0305.CR_I22 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV933936.1|), 
blast E-value=5e-17, identity=84.29%

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


               
               92-159, CJ007915 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ007915.1|), blast E-value=5e-20, identity=95.59% 
               

               
               92-250, DB816966 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|DB816966.1|), blast E-value=0, identity=98.74% 
               

               
               92-250, DB819469 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819469.1|), blast E-value=0, identity=98.11% 
               

               
               111-250, 4102499 BARC 10BOV Bos taurus cDNA clone 10BOV9_H10 5', mRNA 
(gb|CK961198.1|), blast E-value=5e-17, identity=84.29% 
               

               
               111-250, UMC-bemiv_0B02-010-f09 In vitro derived blastocysts Day 8 bemiv Bos 
(gb|CV980908.1|), blast E-value=5e-17, identity=84.29% 
               

               
               111-250, LB0305.CR_I22 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV933936.1|), 
blast E-value=5e-17, identity=84.29%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               46-648, gnl|bosTau2|chr25 (24431048-24431656)
               

               
               46-648, gnl|Hg17|chr16 (30276547-30275927)
               

               
               46-648, gnl|Mm7|chr7 (123294885-123294360)

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


               
               46-648, gnl|bosTau2|chr25 (24431048-24431656)
               

               
               46-648, gnl|Hg17|chr16 (30276547-30275927)
               

               
               46-648, gnl|Mm7|chr7 (123294885-123294360)

Expressed library(ies): 8 entry(ies)

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Expressed library(ies): 8 entry(ies)

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               cga (0.279096)
               

               
               ece (0.229305)
               

               
               fcc (0.197785)
               

               
               cli (0.152812)
               

               
               cst (0.140036)
               

               
               cov (0.132153)
               

               
               cly (0.120642)
               

               
               ecc (0.115035)

Expressed library(ies): 8 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


               
               cga (0.279096)
               

               
               ece (0.229305)
               

               
               fcc (0.197785)
               

               
               cli (0.152812)
               

               
               cst (0.140036)
               

               
               cov (0.132153)
               

               
               cly (0.120642)
               

               
               ecc (0.115035)

	92-250, - strand, RNAz p=0.997494
	491-606, - strand, RNAz p=0.663622

	92-159, CJ007915 full-length enriched swine cDNA library, adult mesenteric (dbj\|CJ007915.1\|), blast E-value=5e-20, identity=95.59%
	92-250, DB816966 full-length enriched swine cDNA library, adult spleen Sus (dbj\|DB816966.1\|), blast E-value=0, identity=98.74%
	92-250, DB819469 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB819469.1\|), blast E-value=0, identity=98.11%
	111-250, 4102499 BARC 10BOV Bos taurus cDNA clone 10BOV9_H10 5', mRNA (gb\|CK961198.1\|), blast E-value=5e-17, identity=84.29%
	111-250, UMC-bemiv_0B02-010-f09 In vitro derived blastocysts Day 8 bemiv Bos (gb\|CV980908.1\|), blast E-value=5e-17, identity=84.29%
	111-250, LB0305.CR_I22 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV933936.1\|), blast E-value=5e-17, identity=84.29%

	46-648, gnl\|bosTau2\|chr25 (24431048-24431656)
	46-648, gnl\|Hg17\|chr16 (30276547-30275927)
	46-648, gnl\|Mm7\|chr7 (123294885-123294360)

	cga (0.279096)
	ece (0.229305)
	fcc (0.197785)
	cli (0.152812)
	cst (0.140036)
	cov (0.132153)
	cly (0.120642)
	ecc (0.115035)