Non-Coding RNA Search

Ss1.1-rpldo0133_o17.5

Sequence:


               
               GGTTTCCCCTTCCTTTCCCCTTCTGACCAGCCATGGAGGCTCAGCATCTGTGCCTCTCAC
TTCATGGATGAGGAAGGACGTGGGGGAAGGCAGAGACTTCAAACTTCTCCGTGTATTGGG
AAAACCAAACACACATCGACAGAAATTTCATCTACAAATAATTCCTTCTGCCAGAAGAGC
AGATCCAAAGGCTCTGAATGATGTTTAATGACATTTGGGCGAATCACTGAAAGTATCCGT
GGTGAGACCACTTAGGTGACATGATATCACAGCTTTCTTGGAAAGAAGGAAAGAAAAGAG
ACGTTTTGGTGTGAATATTTTTTTATGCTGATGTGAATTATTTCATTAAGTAGTGTGATC
CTAGCACTGCTGATGTCAGTATCCTCAGAATGAAAATGTATTTGCCTCAAAGACTGGTAG
AGAAGTAAAAAGAAGCCAATTCCTTCTTCCTCACCTGTAGCCTCCAGCTCCCTTCTTGCC
CATTCCCTCAGTACAACACCCACTCCAGACACAAAGACACACTTTTTCCTTTGGACTGTG
AACATGGAAGCCTCAGCATGAATGTGAGTGGCAAGTGGCTTATCTGGAGCCACCTGCCCA
AGTCTTACTGAAATGCAGCTGTTGTGGGACAACTGTTTAAAACTCCAGAAATACATCGAC
CAAGGTGGCACTTCCCAGTCTCTGGCACAACAATTGCAATTGCACTGGATATATTTTATA
TGTGTGTGTGTGTGCGTGTATATCATATTTTTTACAGAGAACATTTTATGAAAGAAGAAA
CCCTTCTCTGCCTTCTTTCCCACAAATTCTGTCCCTCCCTCTATCCTCCCCTGAATGGAA
AAAACAGCATCAAGAGGACCCAACTGTCTCCAAGAAGACATAGGGATCACCACAAGAAGA
GATGCCCATGGAGTCTTTAGTACCTCAAATATTTTCTCAGTCTCTGTGGTCATGATTTGG
TCACTTAAGTGTTGGGACAGGGGAAGGGGTACATGCGTGGGCAAAGCTGAAGGTTATGAG
GGAGAAGAAATGAACATTAAAGATGTTTGTTTACCA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGTTTCCCCTTCCTTTCCCCTTCTGACCAGCCATGGAGGCTCAGCATCTGTGCCTCTCAC
TTCATGGATGAGGAAGGACGTGGGGGAAGGCAGAGACTTCAAACTTCTCCGTGTATTGGG
AAAACCAAACACACATCGACAGAAATTTCATCTACAAATAATTCCTTCTGCCAGAAGAGC
AGATCCAAAGGCTCTGAATGATGTTTAATGACATTTGGGCGAATCACTGAAAGTATCCGT
GGTGAGACCACTTAGGTGACATGATATCACAGCTTTCTTGGAAAGAAGGAAAGAAAAGAG
ACGTTTTGGTGTGAATATTTTTTTATGCTGATGTGAATTATTTCATTAAGTAGTGTGATC
CTAGCACTGCTGATGTCAGTATCCTCAGAATGAAAATGTATTTGCCTCAAAGACTGGTAG
AGAAGTAAAAAGAAGCCAATTCCTTCTTCCTCACCTGTAGCCTCCAGCTCCCTTCTTGCC
CATTCCCTCAGTACAACACCCACTCCAGACACAAAGACACACTTTTTCCTTTGGACTGTG
AACATGGAAGCCTCAGCATGAATGTGAGTGGCAAGTGGCTTATCTGGAGCCACCTGCCCA
AGTCTTACTGAAATGCAGCTGTTGTGGGACAACTGTTTAAAACTCCAGAAATACATCGAC
CAAGGTGGCACTTCCCAGTCTCTGGCACAACAATTGCAATTGCACTGGATATATTTTATA
TGTGTGTGTGTGTGCGTGTATATCATATTTTTTACAGAGAACATTTTATGAAAGAAGAAA
CCCTTCTCTGCCTTCTTTCCCACAAATTCTGTCCCTCCCTCTATCCTCCCCTGAATGGAA
AAAACAGCATCAAGAGGACCCAACTGTCTCCAAGAAGACATAGGGATCACCACAAGAAGA
GATGCCCATGGAGTCTTTAGTACCTCAAATATTTTCTCAGTCTCTGTGGTCATGATTTGG
TCACTTAAGTGTTGGGACAGGGGAAGGGGTACATGCGTGGGCAAAGCTGAAGGTTATGAG
GGAGAAGAAATGAACATTAAAGATGTTTGTTTACCA

Predicted RNA structure(s): 3 entry(ies)

More info

Predicted RNA structure(s): 3 entry(ies)

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               42-200, - strand, RNAz p=0.947372
               

               
               502-699, - strand, RNAz p=0.99542
               

               
               740-908, - strand, RNAz p=0.988533

Predicted RNA structure(s): 3 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


               
               42-200, - strand, RNAz p=0.947372
               

               
               502-699, - strand, RNAz p=0.99542
               

               
               740-908, - strand, RNAz p=0.988533

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               603-704, - strand, RNAmicro p=0.999771

Predicted microRNA(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               603-704, - strand, RNAmicro p=0.999771

Similar Transcript(s): 3 entry(ies)

More info

Similar Transcript(s): 3 entry(ies)

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               505-699, ox30h04.s1 Soares_total_fetus_Nb2HF8_9w Homo sapiens cDNA clone 
(gb|AI039121.1|), blast E-value=0, identity=92.35% 
               

               
               611-699, qm76h05.x1 Soares_placenta_8to9weeks_2NbHP8to9W Homo sapiens cDNA 
(gb|AI292308.1|), blast E-value=1e-17, identity=88.76% 
               

               
               502-622, 505907 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BM090477.1|), 
blast E-value=0, identity=95.04%

Similar Transcript(s): 3 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


               
               505-699, ox30h04.s1 Soares_total_fetus_Nb2HF8_9w Homo sapiens cDNA clone 
(gb|AI039121.1|), blast E-value=0, identity=92.35% 
               

               
               611-699, qm76h05.x1 Soares_placenta_8to9weeks_2NbHP8to9W Homo sapiens cDNA 
(gb|AI292308.1|), blast E-value=1e-17, identity=88.76% 
               

               
               502-622, 505907 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BM090477.1|), 
blast E-value=0, identity=95.04%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               4-1056, gnl|bosTau2|chr9 (11726437-11725371)
               

               
               4-1056, gnl|Hg17|chr6 (117700366-117701418)
               

               
               4-1056, gnl|Mm7|chr10 (51844233-51845150)

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


               
               4-1056, gnl|bosTau2|chr9 (11726437-11725371)
               

               
               4-1056, gnl|Hg17|chr6 (117700366-117701418)
               

               
               4-1056, gnl|Mm7|chr10 (51844233-51845150)

Expressed library(ies): 9 entry(ies)

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Expressed library(ies): 9 entry(ies)

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               ste (0.540833)
               

               
               ldo (0.38801)
               

               
               vin (0.332557)
               

               
               sme (0.305437)
               

               
               bfe (0.299715)
               

               
               mas (0.210305)
               

               
               isp (0.150376)
               

               
               ssp (0.13552)
               

               
               eru (0.120048)

Expressed library(ies): 9 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


               
               ste (0.540833)
               

               
               ldo (0.38801)
               

               
               vin (0.332557)
               

               
               sme (0.305437)
               

               
               bfe (0.299715)
               

               
               mas (0.210305)
               

               
               isp (0.150376)
               

               
               ssp (0.13552)
               

               
               eru (0.120048)

	42-200, - strand, RNAz p=0.947372
	502-699, - strand, RNAz p=0.99542
	740-908, - strand, RNAz p=0.988533

	505-699, ox30h04.s1 Soares_total_fetus_Nb2HF8_9w Homo sapiens cDNA clone (gb\|AI039121.1\|), blast E-value=0, identity=92.35%
	611-699, qm76h05.x1 Soares_placenta_8to9weeks_2NbHP8to9W Homo sapiens cDNA (gb\|AI292308.1\|), blast E-value=1e-17, identity=88.76%
	502-622, 505907 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BM090477.1\|), blast E-value=0, identity=95.04%

	4-1056, gnl\|bosTau2\|chr9 (11726437-11725371)
	4-1056, gnl\|Hg17\|chr6 (117700366-117701418)
	4-1056, gnl\|Mm7\|chr10 (51844233-51845150)

	ste (0.540833)
	ldo (0.38801)
	vin (0.332557)
	sme (0.305437)
	bfe (0.299715)
	mas (0.210305)
	isp (0.150376)
	ssp (0.13552)
	eru (0.120048)