Non-Coding RNA Search

Ss1.1-MPL-MPL384_8_E10.5

Sequence:


               
               GAAGAGACTGAGGAAGATGGGCTCTGCAGAGATGGTTTGCTTGGGCTGCCCACCAGGGTG
AGCGACTGTCGCTTTACTCTCAGATACAAGTCTGGGTGCTGGGCACCCAGATTCCCCGCT
GGCCAGGATGGAAGGGTGGTCCTGAACCAGGATGGTATTATCGTTGTATGGACTGAAGCC
ACCTGGAGTGAAACATGGCATCTTCCGTGCATAGGTGAGGAGAGCCTGCTCCCCTGAAGT
GGGCCATTCACGAGGCCCACTGTTGGGAAATGAAGAATTTCCCAATTAGGAAGTGTGACA
GAACTGAGGTCTCTTGAGAGAGCTTGGCCAATGCAGGAACAGTGGTTTGGGGAGTAGAAA
CACTAATGATTTGAGGGAAGGGCTCTGACATTCCATGAATGTATCAGGAAATGTTATATG
CGTGTGTGTGTTTGCACACTTGTTCACAGGCTGTGTCAGTGTAAGAGCCGGTGTTCTGTG
CCTGACAGCAAGTCTAGATATTTCCCCAAATTGTGTAGACTGTGATGTCACATAGAATGG
TCGGTTTCAAGACGTCGTGGGTCACTCCTAGGGCCTCTTGGGTCTCCTATGTGATACATC
TAAATGTATCATCCTGGGGCACTGACTGTGACCAGCACTCAATTTCCAGTATCACTTTCA
CGTAGATGTATGTTTCTTGGCCAGTTACCCTTTCTGACCTTCCAGCCAAGTTCATCCAAT
CCTCACTGAGTGAGGTGAGGACCACTCCTGTACACTGAGTATTTAATAATTATGTTCTAC
TATTTTTATTTATATCTATTTTTATAATTTTGAATAAAGATGATCAATAAAACGTGATTT
TTCTGAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAAGAGACTGAGGAAGATGGGCTCTGCAGAGATGGTTTGCTTGGGCTGCCCACCAGGGTG
AGCGACTGTCGCTTTACTCTCAGATACAAGTCTGGGTGCTGGGCACCCAGATTCCCCGCT
GGCCAGGATGGAAGGGTGGTCCTGAACCAGGATGGTATTATCGTTGTATGGACTGAAGCC
ACCTGGAGTGAAACATGGCATCTTCCGTGCATAGGTGAGGAGAGCCTGCTCCCCTGAAGT
GGGCCATTCACGAGGCCCACTGTTGGGAAATGAAGAATTTCCCAATTAGGAAGTGTGACA
GAACTGAGGTCTCTTGAGAGAGCTTGGCCAATGCAGGAACAGTGGTTTGGGGAGTAGAAA
CACTAATGATTTGAGGGAAGGGCTCTGACATTCCATGAATGTATCAGGAAATGTTATATG
CGTGTGTGTGTTTGCACACTTGTTCACAGGCTGTGTCAGTGTAAGAGCCGGTGTTCTGTG
CCTGACAGCAAGTCTAGATATTTCCCCAAATTGTGTAGACTGTGATGTCACATAGAATGG
TCGGTTTCAAGACGTCGTGGGTCACTCCTAGGGCCTCTTGGGTCTCCTATGTGATACATC
TAAATGTATCATCCTGGGGCACTGACTGTGACCAGCACTCAATTTCCAGTATCACTTTCA
CGTAGATGTATGTTTCTTGGCCAGTTACCCTTTCTGACCTTCCAGCCAAGTTCATCCAAT
CCTCACTGAGTGAGGTGAGGACCACTCCTGTACACTGAGTATTTAATAATTATGTTCTAC
TATTTTTATTTATATCTATTTTTATAATTTTGAATAAAGATGATCAATAAAACGTGATTT
TTCTGAAAAAAA

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

More info

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

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               168-360, - strand, RNAz p=0.999469
               

               
               401-506, + strand, RNAz p=0.686269

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


               
               168-360, - strand, RNAz p=0.999469
               

               
               401-506, + strand, RNAz p=0.686269

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               169-358, AJ692323 KN261 Bos taurus cDNA clone KN261-026_O03, mRNA sequence 
(emb|AJ692323.1|), blast E-value=5e-39, identity=86.46% 
               

               
               169-358, AM022349 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0005916l08 3', 
(emb|AM022349.1|), blast E-value=5e-39, identity=86.46% 
               

               
               169-358, 59148 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW484086.1|), 
blast E-value=5e-39, identity=86.46% 
               

               
               169-358, BP250026A10C9 Soares normalized bovine placenta Bos taurus cDNA 
(gb|BF041513.1|), blast E-value=5e-39, identity=86.46% 
               

               
               169-358, 970866 BARC 5BOV Bos taurus cDNA 3', mRNA sequence (gb|CK848148.1|), 
blast E-value=5e-39, identity=86.46% 
               

               
               169-358, UMC-bcl_0A01-030-e09 Day 14 CL from a pregnant animal bcl Bos 
(gb|CX948720.1|), blast E-value=5e-39, identity=86.46%

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


               
               169-358, AJ692323 KN261 Bos taurus cDNA clone KN261-026_O03, mRNA sequence 
(emb|AJ692323.1|), blast E-value=5e-39, identity=86.46% 
               

               
               169-358, AM022349 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0005916l08 3', 
(emb|AM022349.1|), blast E-value=5e-39, identity=86.46% 
               

               
               169-358, 59148 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW484086.1|), 
blast E-value=5e-39, identity=86.46% 
               

               
               169-358, BP250026A10C9 Soares normalized bovine placenta Bos taurus cDNA 
(gb|BF041513.1|), blast E-value=5e-39, identity=86.46% 
               

               
               169-358, 970866 BARC 5BOV Bos taurus cDNA 3', mRNA sequence (gb|CK848148.1|), 
blast E-value=5e-39, identity=86.46% 
               

               
               169-358, UMC-bcl_0A01-030-e09 Day 14 CL from a pregnant animal bcl Bos 
(gb|CX948720.1|), blast E-value=5e-39, identity=86.46%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-847, gnl|bosTau2|chr28 (23042765-23043630)
               

               
               1-847, gnl|Hg17|chr10 (75346412-75347259)
               

               
               1-847, gnl|Mm7|chr14 (18499096-18499944)

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


               
               1-847, gnl|bosTau2|chr28 (23042765-23043630)
               

               
               1-847, gnl|Hg17|chr10 (75346412-75347259)
               

               
               1-847, gnl|Mm7|chr14 (18499096-18499944)

Expressed library(ies): 8 entry(ies)

More info

Expressed library(ies): 8 entry(ies)

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               sme (0.305437)
               

               
               lin (0.291206)
               

               
               mgp (0.230681)
               

               
               ton (0.1755)
               

               
               duo (0.172801)
               

               
               csp (0.161186)
               

               
               csk (0.140746)
               

               
               ste (0.135208)

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


               
               sme (0.305437)
               

               
               lin (0.291206)
               

               
               mgp (0.230681)
               

               
               ton (0.1755)
               

               
               duo (0.172801)
               

               
               csp (0.161186)
               

               
               csk (0.140746)
               

               
               ste (0.135208)

	168-360, - strand, RNAz p=0.999469
	401-506, + strand, RNAz p=0.686269

	169-358, AJ692323 KN261 Bos taurus cDNA clone KN261-026_O03, mRNA sequence (emb\|AJ692323.1\|), blast E-value=5e-39, identity=86.46%
	169-358, AM022349 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0005916l08 3', (emb\|AM022349.1\|), blast E-value=5e-39, identity=86.46%
	169-358, 59148 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW484086.1\|), blast E-value=5e-39, identity=86.46%
	169-358, BP250026A10C9 Soares normalized bovine placenta Bos taurus cDNA (gb\|BF041513.1\|), blast E-value=5e-39, identity=86.46%
	169-358, 970866 BARC 5BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK848148.1\|), blast E-value=5e-39, identity=86.46%
	169-358, UMC-bcl_0A01-030-e09 Day 14 CL from a pregnant animal bcl Bos (gb\|CX948720.1\|), blast E-value=5e-39, identity=86.46%

	1-847, gnl\|bosTau2\|chr28 (23042765-23043630)
	1-847, gnl\|Hg17\|chr10 (75346412-75347259)
	1-847, gnl\|Mm7\|chr14 (18499096-18499944)

	sme (0.305437)
	lin (0.291206)
	mgp (0.230681)
	ton (0.1755)
	duo (0.172801)
	csp (0.161186)
	csk (0.140746)
	ste (0.135208)