Non-Coding RNA Search

Ss1.1-Pig4-TMW8056O11.3

Sequence:


               
               TCTTTGAGGACTGAGGCTGGGAGGCCTCCTCCTCGCTCTGGCCCTCGTGGAACCTTCAGG
GCCTCTGGTTTCTGACTGTGAAGTTTCATATCCACTTGACTCCTCGGGGCGCTCCAGATG
GAGCCATGGGGTCCTAGGCTGTCTCTAGAGGAGAGGGGCCAAGATGCTGAGATTTTGACC
TGCGAAGTGGATACCAGAGATCCAGCAGAGACATCAGGTTCTTAGGGACAAGCAGAAATC
CTCCAGGGGCTTACATGCTTTTTGCCAACTTTCTTTTTTTAGCAGCTTCAGTTTTATATC
ACCCCGAGTGAGTGTGATAATGTTGAAGTCGCTGAAGTTATGGGTTATTTTACATTTTGA
TGTGGGATTTTTCTTTTTTTTGATTGGAAGGAGGAGGCAGAAATTGGAGAAAAGGGATCA
CCCCAAGGAAGGGGCCACTAGCAAGGAGTGGAGTTGGCCCCACCGAGTCCTGGGGGCTCT
GACCTGAGGCCTGGACACTAGGCCCTGTGGGTCACAAGAAAAAGTTCCCTCCTAAATTCT
GTTAGGATTTTGAAAAATTTTTGCACAGTAATAAGCTCTGGGTTTGCTCTTTGGGCTTCT
CAAAAGGGAAAAGTTAACTCAAAGATTGTAAACTATGAAGTATTCCAGCCATGTTGCTGA
CCTAGATGAATAGTTGTACCTCAAGTAGGTGAGAAATGGCTTCCTCATTGTCCCAGGTTG
TCAAATATTAATGACAGAAGAGCTCACTTACGTGCCAAAATTCACTTTTATACTAGTTTT
TCAATGCTTTAATATTTGTAACTTAAATTTTAAAACTATTTACAAACACTACTGTAACTT
CAGTGAAACAATGTGTGATTGAAGCTTTTTGCTTATTATAGTATTTATTATACTACTTAC
TTCAGTAAATATATAAAAGTAGCCTTCAATTTATTTTTATATTATTTTCATGTTTTTACC
TGCAGTTGTGTTATGTGAATTTACCTTGTTAACTGAGACGTAATGCTAAGGACCAATAAA
CTATCACTGAATAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCTTTGAGGACTGAGGCTGGGAGGCCTCCTCCTCGCTCTGGCCCTCGTGGAACCTTCAGG
GCCTCTGGTTTCTGACTGTGAAGTTTCATATCCACTTGACTCCTCGGGGCGCTCCAGATG
GAGCCATGGGGTCCTAGGCTGTCTCTAGAGGAGAGGGGCCAAGATGCTGAGATTTTGACC
TGCGAAGTGGATACCAGAGATCCAGCAGAGACATCAGGTTCTTAGGGACAAGCAGAAATC
CTCCAGGGGCTTACATGCTTTTTGCCAACTTTCTTTTTTTAGCAGCTTCAGTTTTATATC
ACCCCGAGTGAGTGTGATAATGTTGAAGTCGCTGAAGTTATGGGTTATTTTACATTTTGA
TGTGGGATTTTTCTTTTTTTTGATTGGAAGGAGGAGGCAGAAATTGGAGAAAAGGGATCA
CCCCAAGGAAGGGGCCACTAGCAAGGAGTGGAGTTGGCCCCACCGAGTCCTGGGGGCTCT
GACCTGAGGCCTGGACACTAGGCCCTGTGGGTCACAAGAAAAAGTTCCCTCCTAAATTCT
GTTAGGATTTTGAAAAATTTTTGCACAGTAATAAGCTCTGGGTTTGCTCTTTGGGCTTCT
CAAAAGGGAAAAGTTAACTCAAAGATTGTAAACTATGAAGTATTCCAGCCATGTTGCTGA
CCTAGATGAATAGTTGTACCTCAAGTAGGTGAGAAATGGCTTCCTCATTGTCCCAGGTTG
TCAAATATTAATGACAGAAGAGCTCACTTACGTGCCAAAATTCACTTTTATACTAGTTTT
TCAATGCTTTAATATTTGTAACTTAAATTTTAAAACTATTTACAAACACTACTGTAACTT
CAGTGAAACAATGTGTGATTGAAGCTTTTTGCTTATTATAGTATTTATTATACTACTTAC
TTCAGTAAATATATAAAAGTAGCCTTCAATTTATTTTTATATTATTTTCATGTTTTTACC
TGCAGTTGTGTTATGTGAATTTACCTTGTTAACTGAGACGTAATGCTAAGGACCAATAAA
CTATCACTGAATAAAAAAAAAAAA

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

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

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               1-114, - strand, RNAz p=0.876605
               

               
               343-609, + strand, RNAz p=0.999296

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


               
               1-114, - strand, RNAz p=0.876605
               

               
               343-609, + strand, RNAz p=0.999296

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               426-609, AJ694190 KN261 Bos taurus cDNA clone KN261-043_E22, mRNA sequence 
(emb|AJ694190.1|), blast E-value=0, identity=91.85% 
               

               
               382-609, AM026847 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007393e19 
(emb|AM026847.1|), blast E-value=0, identity=91.23% 
               

               
               385-609, DG2-114h13 DG2-brain Canis familiaris cDNA 3', mRNA sequence 
(gb|CO585340.1|), blast E-value=0, identity=87.72% 
               

               
               382-609, BovGen_18732 normal cattle brain Bos taurus cDNA clone 
(gb|CO890407.1|), blast E-value=0, identity=91.67% 
               

               
               382-609, BovGen_22254 normal cattle brain Bos taurus cDNA clone 
(gb|CO893929.1|), blast E-value=0, identity=91.67% 
               

               
               382-609, 000924BEMN023164HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY058526.1|), blast E-value=0, identity=91.67%

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


               
               426-609, AJ694190 KN261 Bos taurus cDNA clone KN261-043_E22, mRNA sequence 
(emb|AJ694190.1|), blast E-value=0, identity=91.85% 
               

               
               382-609, AM026847 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007393e19 
(emb|AM026847.1|), blast E-value=0, identity=91.23% 
               

               
               385-609, DG2-114h13 DG2-brain Canis familiaris cDNA 3', mRNA sequence 
(gb|CO585340.1|), blast E-value=0, identity=87.72% 
               

               
               382-609, BovGen_18732 normal cattle brain Bos taurus cDNA clone 
(gb|CO890407.1|), blast E-value=0, identity=91.67% 
               

               
               382-609, BovGen_22254 normal cattle brain Bos taurus cDNA clone 
(gb|CO893929.1|), blast E-value=0, identity=91.67% 
               

               
               382-609, 000924BEMN023164HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY058526.1|), blast E-value=0, identity=91.67%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1034, gnl|bosTau2|chr13 (34639685-34638658)
               

               
               1-1034, gnl|Hg17|chr20 (3178976-3177952)
               

               
               1-1034, gnl|Mm7|chr2 (130448018-130447056)

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


               
               1-1034, gnl|bosTau2|chr13 (34639685-34638658)
               

               
               1-1034, gnl|Hg17|chr20 (3178976-3177952)
               

               
               1-1034, gnl|Mm7|chr2 (130448018-130447056)

Expressed library(ies): 8 entry(ies)

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Expressed library(ies): 8 entry(ies)

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               spc (0.340097)
               

               
               mga (0.32041)
               

               
               fco (0.314416)
               

               
               sug (0.254582)
               

               
               fhi (0.169578)
               

               
               ssp (0.13552)
               

               
               bla (0.124347)
               

               
               eru (0.120048)

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


               
               spc (0.340097)
               

               
               mga (0.32041)
               

               
               fco (0.314416)
               

               
               sug (0.254582)
               

               
               fhi (0.169578)
               

               
               ssp (0.13552)
               

               
               bla (0.124347)
               

               
               eru (0.120048)

	1-114, - strand, RNAz p=0.876605
	343-609, + strand, RNAz p=0.999296

	426-609, AJ694190 KN261 Bos taurus cDNA clone KN261-043_E22, mRNA sequence (emb\|AJ694190.1\|), blast E-value=0, identity=91.85%
	382-609, AM026847 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007393e19 (emb\|AM026847.1\|), blast E-value=0, identity=91.23%
	385-609, DG2-114h13 DG2-brain Canis familiaris cDNA 3', mRNA sequence (gb\|CO585340.1\|), blast E-value=0, identity=87.72%
	382-609, BovGen_18732 normal cattle brain Bos taurus cDNA clone (gb\|CO890407.1\|), blast E-value=0, identity=91.67%
	382-609, BovGen_22254 normal cattle brain Bos taurus cDNA clone (gb\|CO893929.1\|), blast E-value=0, identity=91.67%
	382-609, 000924BEMN023164HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY058526.1\|), blast E-value=0, identity=91.67%

	1-1034, gnl\|bosTau2\|chr13 (34639685-34638658)
	1-1034, gnl\|Hg17\|chr20 (3178976-3177952)
	1-1034, gnl\|Mm7\|chr2 (130448018-130447056)

	spc (0.340097)
	mga (0.32041)
	fco (0.314416)
	sug (0.254582)
	fhi (0.169578)
	ssp (0.13552)
	bla (0.124347)
	eru (0.120048)