Non-Coding RNA Search

Ss1.1-Pig3-SRG8020H03.3

Sequence:


               
               CTGAGAGAGAACAAAAAGAGAGACTTTTTTGTATTGGAAGTAACCTGATTAATTTTTATT
TTCTTCAAGGAGAGATACTTGAAAGGAATATGTTTGTCCATCTGTTGGATCCAAACATTT
CTATATTTTGTAAATGTTGTTTTTTTTTTATCGTTTACTATTTGCACTACGATGGTGTCT
GACCTGTCTAATCCTTATTTAACAAGTATTTTCTTTGGGTGGGGGCGGGGGGGGTTCAGA
GCTGCACTTAATGTGAGCTATAAAAGAACTGCTACAGCACACAAAATAGCTATTTTTATT
ATTATAATTATAATTATTATTATTATTTTGTACCTTAAAAAAATAGACACATACACCAAA
GACATTTGTGTGAGCCTTTAAACAGTCTGTCTGTGGTTGGTATCATTCACCTTCAGTGAG
TCAAGGGTCGGGATTCAAGGTGGAAGGGGTGGATTGTGTTCAAGCTGAAAAGACCTGAGA
AGTTCGGGGTTTTGACTCCTTTTACATCCATGAAGCAGGACATTTCATACTGGATGTACA
GTAGTTGTACACTGTTCGGTATCAAGTTCAACCAGATTCATGGGACGCTCCATGCTTGTC
TGTGTATATATCCAGTGCTTGGGCACATGCATGTCTGTGTGTATGTATACATGTGTTGCA
TCGTGTCCATACACATTTTAAGCACTTCAGGCTGTCATTTTGTAATGTTCTTAAAGCAAT
GAATGTTTGTGTGCAAAACACAGTATTTTTAAGAAGGATAGGCTATAGTTTTTGCTTTTA
CTCTGAACTAGGTGGGCACATTTCAGAAATTTGGACAGGAGGAAGCCTGGAAATTCCAGT
GACTCTTCAGTAAGACCCTCTTTGAATGATCCAATTCCCTCTTTTTTCTTGTCCTCCACC
CTCATCCTACAAGGTACTCCCTGCAGGGAAAACAAAACAGGAAACTCATGGTCATCAAAG
CTCTAGGCTGATTTTTTTTTGGGGGGGAGGGAGGGATAATATTCTTATTATCTGTTGGAA
TCAATCTTAAATCAGAAGCTTTTTCAGAAAAAAAAAAATTAACCTTGAACCAAGATAAAA
GAGGTGGTTGCATTTTTGTTTTGTTTTATAACTAAAGTCTGGTTGTGAGAAATATGACCT
GTACAGCTAGGCTGAATCATGTTGGTGTCACTAGATAAAAGAGGAATAATTCAAGGGAAG
GTGTTTAAGAGGGTGGGAGTAAGAAAGAGAAGAGGAAGCAGGAATGGGGGGAATAGTAAA
AATCCCTTTTACAGCCAAAAACTCTTGATGTATAAGTTGGTGTGTATTGATGTTAATGCA
AAAAGAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTGAGAGAGAACAAAAAGAGAGACTTTTTTGTATTGGAAGTAACCTGATTAATTTTTATT
TTCTTCAAGGAGAGATACTTGAAAGGAATATGTTTGTCCATCTGTTGGATCCAAACATTT
CTATATTTTGTAAATGTTGTTTTTTTTTTATCGTTTACTATTTGCACTACGATGGTGTCT
GACCTGTCTAATCCTTATTTAACAAGTATTTTCTTTGGGTGGGGGCGGGGGGGGTTCAGA
GCTGCACTTAATGTGAGCTATAAAAGAACTGCTACAGCACACAAAATAGCTATTTTTATT
ATTATAATTATAATTATTATTATTATTTTGTACCTTAAAAAAATAGACACATACACCAAA
GACATTTGTGTGAGCCTTTAAACAGTCTGTCTGTGGTTGGTATCATTCACCTTCAGTGAG
TCAAGGGTCGGGATTCAAGGTGGAAGGGGTGGATTGTGTTCAAGCTGAAAAGACCTGAGA
AGTTCGGGGTTTTGACTCCTTTTACATCCATGAAGCAGGACATTTCATACTGGATGTACA
GTAGTTGTACACTGTTCGGTATCAAGTTCAACCAGATTCATGGGACGCTCCATGCTTGTC
TGTGTATATATCCAGTGCTTGGGCACATGCATGTCTGTGTGTATGTATACATGTGTTGCA
TCGTGTCCATACACATTTTAAGCACTTCAGGCTGTCATTTTGTAATGTTCTTAAAGCAAT
GAATGTTTGTGTGCAAAACACAGTATTTTTAAGAAGGATAGGCTATAGTTTTTGCTTTTA
CTCTGAACTAGGTGGGCACATTTCAGAAATTTGGACAGGAGGAAGCCTGGAAATTCCAGT
GACTCTTCAGTAAGACCCTCTTTGAATGATCCAATTCCCTCTTTTTTCTTGTCCTCCACC
CTCATCCTACAAGGTACTCCCTGCAGGGAAAACAAAACAGGAAACTCATGGTCATCAAAG
CTCTAGGCTGATTTTTTTTTGGGGGGGAGGGAGGGATAATATTCTTATTATCTGTTGGAA
TCAATCTTAAATCAGAAGCTTTTTCAGAAAAAAAAAAATTAACCTTGAACCAAGATAAAA
GAGGTGGTTGCATTTTTGTTTTGTTTTATAACTAAAGTCTGGTTGTGAGAAATATGACCT
GTACAGCTAGGCTGAATCATGTTGGTGTCACTAGATAAAAGAGGAATAATTCAAGGGAAG
GTGTTTAAGAGGGTGGGAGTAAGAAAGAGAAGAGGAAGCAGGAATGGGGGGAATAGTAAA
AATCCCTTTTACAGCCAAAAACTCTTGATGTATAAGTTGGTGTGTATTGATGTTAATGCA
AAAAGAAAAAAA

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

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

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               40-192, - strand, RNAz p=0.970175
               

               
               467-729, + strand, RNAz p=0.987223

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


               
               40-192, - strand, RNAz p=0.970175
               

               
               467-729, + strand, RNAz p=0.987223

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               609-699, + strand, RNAmicro p=0.970874

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


               
               609-699, + strand, RNAmicro p=0.970874

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               516-729, BP108716 ORCS bovine utero-placenta cDNA Bos taurus cDNA clone 
(dbj|BP108716.1|), blast E-value=0, identity=93.46% 
               

               
               547-729, AJ746624 forward - stimulated minus unstimulated macrophage Sus 
(emb|AJ746624.1|), blast E-value=0, identity=99.45% 
               

               
               547-729, AJ746628 forward - stimulated minus unstimulated macrophage Sus 
(emb|AJ746628.1|), blast E-value=0, identity=100% 
               

               
               468-729, 602646416F1 NIH_MGC_79 Homo sapiens cDNA clone IMAGE (gb|BG621859.1|), 
blast E-value=0, identity=90.84% 
               

               
               490-729, 962256 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK773598.1|), 
blast E-value=0, identity=93.75% 
               

               
               518-729, 1157347 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN278062.1|), 
blast E-value=0, identity=93.4%

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


               
               516-729, BP108716 ORCS bovine utero-placenta cDNA Bos taurus cDNA clone 
(dbj|BP108716.1|), blast E-value=0, identity=93.46% 
               

               
               547-729, AJ746624 forward - stimulated minus unstimulated macrophage Sus 
(emb|AJ746624.1|), blast E-value=0, identity=99.45% 
               

               
               547-729, AJ746628 forward - stimulated minus unstimulated macrophage Sus 
(emb|AJ746628.1|), blast E-value=0, identity=100% 
               

               
               468-729, 602646416F1 NIH_MGC_79 Homo sapiens cDNA clone IMAGE (gb|BG621859.1|), 
blast E-value=0, identity=90.84% 
               

               
               490-729, 962256 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK773598.1|), 
blast E-value=0, identity=93.75% 
               

               
               518-729, 1157347 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN278062.1|), 
blast E-value=0, identity=93.4%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1332, gnl|bosTau2|chr4 (46330124-46328774)
               

               
               1-1332, gnl|Hg17|chr7 (41501705-41500395)
               

               
               1-1332, gnl|Mm7|chr13 (15395547-15396778)

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


               
               1-1332, gnl|bosTau2|chr4 (46330124-46328774)
               

               
               1-1332, gnl|Hg17|chr7 (41501705-41500395)
               

               
               1-1332, gnl|Mm7|chr13 (15395547-15396778)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               gul (0.177588)

Expressed library(ies): 1 entry(ies)

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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


               
               gul (0.177588)

	40-192, - strand, RNAz p=0.970175
	467-729, + strand, RNAz p=0.987223

	516-729, BP108716 ORCS bovine utero-placenta cDNA Bos taurus cDNA clone (dbj\|BP108716.1\|), blast E-value=0, identity=93.46%
	547-729, AJ746624 forward - stimulated minus unstimulated macrophage Sus (emb\|AJ746624.1\|), blast E-value=0, identity=99.45%
	547-729, AJ746628 forward - stimulated minus unstimulated macrophage Sus (emb\|AJ746628.1\|), blast E-value=0, identity=100%
	468-729, 602646416F1 NIH_MGC_79 Homo sapiens cDNA clone IMAGE (gb\|BG621859.1\|), blast E-value=0, identity=90.84%
	490-729, 962256 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK773598.1\|), blast E-value=0, identity=93.75%
	518-729, 1157347 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN278062.1\|), blast E-value=0, identity=93.4%

	1-1332, gnl\|bosTau2\|chr4 (46330124-46328774)
	1-1332, gnl\|Hg17\|chr7 (41501705-41500395)
	1-1332, gnl\|Mm7\|chr13 (15395547-15396778)