Non-Coding RNA Search

Ss1.1-Pig4-TMW8027M19.3

Sequence:


               
               ACAGGCATTATGCTAGATACTGAGGATAGGAAGGTAAGACTGCCATGGTCTCTGCCCTCA
CAGAGCTTACAGTCTCAAGTAGTCTTAGTAAGATAAGGTGTCCATTTGATTTTATCTCAG
AAATAATAAAACTGCCTTGCTTTCTTTGATCGCTTAAAATCAGCATCTTGATGGTTTTGT
ATCAGCAAAACTTCTAGTTCTCACCTTTTGCAACTCGAACCACTGAAGTGGTTTACAGTC
TCCCCAACTTCTTGGCTGGAGAGGTGTTGTGTTTCTGTGAGACAGTTTCTTAATTTGGGT
GGTACTTGACTTTTCTCCTTTGTTTATACATGTTTCTTAGATTGTATTGCAAAGTGGTCA
AGTTACTGATATCAAATACGTTTTACAGGGAAGATGACTTTCAAAACTAGTCATATTCTT
GTAGAGGAGGAAGATTTTTTAAAACCTTAGACATCCAACATTTGTATTTTAGGGATCCCC
AGGATAACTAAAAAGGAGACAGGGCTCTCTTTACCACAGTTTGGTTTTGAAAAAATTACT
GTGTCACGGTTATTTATTTATTATTTAATTTTAAAGGCAAACTGAAGTGGCTCTGAGGTA
AATCAGATGTGGTTTTAAATTGTTTTAGTTTCCTTATTAGAAGAGTCTATATATGGAGAG
TGACCAGTGTCACTACTTCTAAAATACTGTCCTAAACAAACAACCCAGAACATTTTATTT
CAGCTGGTGAATAGCTGTTCTAAGTCTGTTGTATGTTAGACATACTGTGAACTACCTCTT
CACTTACTATGGGGAAGTTTCCTTAATAAAAGTGTGACAATTAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACAGGCATTATGCTAGATACTGAGGATAGGAAGGTAAGACTGCCATGGTCTCTGCCCTCA
CAGAGCTTACAGTCTCAAGTAGTCTTAGTAAGATAAGGTGTCCATTTGATTTTATCTCAG
AAATAATAAAACTGCCTTGCTTTCTTTGATCGCTTAAAATCAGCATCTTGATGGTTTTGT
ATCAGCAAAACTTCTAGTTCTCACCTTTTGCAACTCGAACCACTGAAGTGGTTTACAGTC
TCCCCAACTTCTTGGCTGGAGAGGTGTTGTGTTTCTGTGAGACAGTTTCTTAATTTGGGT
GGTACTTGACTTTTCTCCTTTGTTTATACATGTTTCTTAGATTGTATTGCAAAGTGGTCA
AGTTACTGATATCAAATACGTTTTACAGGGAAGATGACTTTCAAAACTAGTCATATTCTT
GTAGAGGAGGAAGATTTTTTAAAACCTTAGACATCCAACATTTGTATTTTAGGGATCCCC
AGGATAACTAAAAAGGAGACAGGGCTCTCTTTACCACAGTTTGGTTTTGAAAAAATTACT
GTGTCACGGTTATTTATTTATTATTTAATTTTAAAGGCAAACTGAAGTGGCTCTGAGGTA
AATCAGATGTGGTTTTAAATTGTTTTAGTTTCCTTATTAGAAGAGTCTATATATGGAGAG
TGACCAGTGTCACTACTTCTAAAATACTGTCCTAAACAAACAACCCAGAACATTTTATTT
CAGCTGGTGAATAGCTGTTCTAAGTCTGTTGTATGTTAGACATACTGTGAACTACCTCTT
CACTTACTATGGGGAAGTTTCCTTAATAAAAGTGTGACAATTAAAAAAAAAAAAAAAAAA

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

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

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               149-302, - strand, RNAz p=0.999486
               

               
               640-799, - strand, RNAz p=0.849604

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


               
               149-302, - strand, RNAz p=0.999486
               

               
               640-799, - strand, RNAz p=0.849604

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               153-302, CR454276 Normalized and Subtracted bovine embryonic and 
(emb|CR454276.2|), blast E-value=4.2039e-45, identity=91.39% 
               

               
               154-284, 601076330F1 NIH_MGC_12 Homo sapiens cDNA clone IMAGE (gb|BE547723.1|), 
blast E-value=2e-19, identity=85.5% 
               

               
               153-302, FBB603000439.R1 CSEQFXN18 ovary Bos taurus cDNA, mRNA sequence 
(gb|CB167855.1|), blast E-value=4e-39, identity=90.85% 
               

               
               156-302, 597138 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB423660.1|), 
blast E-value=5.99994e-41, identity=90.54% 
               

               
               153-283, 1254564 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN516127.1|), 
blast E-value=9e-37, identity=90.91% 
               

               
               153-302, 1255332 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN516801.1|), 
blast E-value=4.2039e-45, identity=91.39%

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


               
               153-302, CR454276 Normalized and Subtracted bovine embryonic and 
(emb|CR454276.2|), blast E-value=4.2039e-45, identity=91.39% 
               

               
               154-284, 601076330F1 NIH_MGC_12 Homo sapiens cDNA clone IMAGE (gb|BE547723.1|), 
blast E-value=2e-19, identity=85.5% 
               

               
               153-302, FBB603000439.R1 CSEQFXN18 ovary Bos taurus cDNA, mRNA sequence 
(gb|CB167855.1|), blast E-value=4e-39, identity=90.85% 
               

               
               156-302, 597138 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB423660.1|), 
blast E-value=5.99994e-41, identity=90.54% 
               

               
               153-283, 1254564 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN516127.1|), 
blast E-value=9e-37, identity=90.91% 
               

               
               153-302, 1255332 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN516801.1|), 
blast E-value=4.2039e-45, identity=91.39%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               3-826, gnl|bosTau2|chr11 (75855467-75854644)
               

               
               3-826, gnl|Hg17|chr9 (122758214-122757399)
               

               
               3-826, gnl|Mm7|chr2 (37440584-37439479)

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


               
               3-826, gnl|bosTau2|chr11 (75855467-75854644)
               

               
               3-826, gnl|Hg17|chr9 (122758214-122757399)
               

               
               3-826, gnl|Mm7|chr2 (37440584-37439479)

Expressed library(ies): 7 entry(ies)

More info

Expressed library(ies): 7 entry(ies)

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               fty (0.17584)
               

               
               mcp (0.170648)
               

               
               eye (0.170503)
               

               
               fco (0.157208)
               

               
               spl (0.143184)
               

               
               kid (0.129735)
               

               
               tra (0.123092)

Expressed library(ies): 7 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


               
               fty (0.17584)
               

               
               mcp (0.170648)
               

               
               eye (0.170503)
               

               
               fco (0.157208)
               

               
               spl (0.143184)
               

               
               kid (0.129735)
               

               
               tra (0.123092)

	149-302, - strand, RNAz p=0.999486
	640-799, - strand, RNAz p=0.849604

	153-302, CR454276 Normalized and Subtracted bovine embryonic and (emb\|CR454276.2\|), blast E-value=4.2039e-45, identity=91.39%
	154-284, 601076330F1 NIH_MGC_12 Homo sapiens cDNA clone IMAGE (gb\|BE547723.1\|), blast E-value=2e-19, identity=85.5%
	153-302, FBB603000439.R1 CSEQFXN18 ovary Bos taurus cDNA, mRNA sequence (gb\|CB167855.1\|), blast E-value=4e-39, identity=90.85%
	156-302, 597138 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB423660.1\|), blast E-value=5.99994e-41, identity=90.54%
	153-283, 1254564 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN516127.1\|), blast E-value=9e-37, identity=90.91%
	153-302, 1255332 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN516801.1\|), blast E-value=4.2039e-45, identity=91.39%

	3-826, gnl\|bosTau2\|chr11 (75855467-75854644)
	3-826, gnl\|Hg17\|chr9 (122758214-122757399)
	3-826, gnl\|Mm7\|chr2 (37440584-37439479)

	fty (0.17584)
	mcp (0.170648)
	eye (0.170503)
	fco (0.157208)
	spl (0.143184)
	kid (0.129735)
	tra (0.123092)