Non-Coding RNA Search

Ss1.1-Mixn-0006c03.5

Sequence:


               
               CAGACTTGGACTTTGAGCCAGTCCACGGCCAAGAGGGAGAAGCGGTGGAGTGTGTCCTCG
GGTGGGGCGGCCGATCGGAGCGTGGCCAGCGAGAAGCCTAGCCCAGGGGAGCGTCCTGGC
TTATCCCAACAACGGCGACATCAGAGCTGGAGCACCTTCAAGTCTATGACGCTGGGCTCG
CTGCCCCCCAAGCCCCGAGAACGGCTGGCCCTGCACCGGGCCGCCGCCTGGGAGCCCACA
GAACCACCCGATGGCGACTTCCAGACAGAAGTGTGAGTGCCACGCCGGACTGCCCACTGC
GTATATAAATATATATATCTCTCTATTTTCACACTCCACTTTGGAACTACCCAGGAGCCA
GCGCCCCCTCCCCTTTCCCGAGGGCTGGGCAGGGAGGCACAGTGGACTCAGCCGGGCTGG
GGGAGCCAGACACAGCGTGGCCAGGGGGGCCAGGGCCCTTCCCTATTTCTCAGAGGCCTC
TCAGCCCCTAGAGCCCCCTCTTCGCCCCCGGCCTGTCTGTCCCTGTCCCGGCTGGGGATG
GGGGAGGGGAACTTTGTTGGGAATAAACTTCACTCTGTGAAAAAAAAAAAAAAACAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGACTTGGACTTTGAGCCAGTCCACGGCCAAGAGGGAGAAGCGGTGGAGTGTGTCCTCG
GGTGGGGCGGCCGATCGGAGCGTGGCCAGCGAGAAGCCTAGCCCAGGGGAGCGTCCTGGC
TTATCCCAACAACGGCGACATCAGAGCTGGAGCACCTTCAAGTCTATGACGCTGGGCTCG
CTGCCCCCCAAGCCCCGAGAACGGCTGGCCCTGCACCGGGCCGCCGCCTGGGAGCCCACA
GAACCACCCGATGGCGACTTCCAGACAGAAGTGTGAGTGCCACGCCGGACTGCCCACTGC
GTATATAAATATATATATCTCTCTATTTTCACACTCCACTTTGGAACTACCCAGGAGCCA
GCGCCCCCTCCCCTTTCCCGAGGGCTGGGCAGGGAGGCACAGTGGACTCAGCCGGGCTGG
GGGAGCCAGACACAGCGTGGCCAGGGGGGCCAGGGCCCTTCCCTATTTCTCAGAGGCCTC
TCAGCCCCTAGAGCCCCCTCTTCGCCCCCGGCCTGTCTGTCCCTGTCCCGGCTGGGGATG
GGGGAGGGGAACTTTGTTGGGAATAAACTTCACTCTGTGAAAAAAAAAAAAAAACAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

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               159-269, - strand, RNAz p=0.654282
               

               
               207-521, - strand, RNAz p=0.996107
               

               
               413-514, - strand, RNAz p=0.966428

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


               
               159-269, - strand, RNAz p=0.654282
               

               
               207-521, - strand, RNAz p=0.996107
               

               
               413-514, - strand, RNAz p=0.966428

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               319-301, UMC-bof_0B01-006-d12 Ovarian follicle early selected bof Bos taurus 
(gb|CX954767.1|), blast E-value=1e-25, identity=91.58% 
               

               
               319-301, 1359740 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN531768.1|), 
blast E-value=1e-25, identity=91.58% 
               

               
               319-301, 1361276 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN533160.1|), 
blast E-value=1e-25, identity=91.58% 
               

               
               319-301, LB00416.CR_M06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT832504.1|), 
blast E-value=1e-25, identity=91.58% 
               

               
               319-301, LB00420.CR_M07 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT833382.1|), 
blast E-value=1e-25, identity=91.58% 
               

               
               319-301, LB00520.CR_E15 GC_BGC-05 Bos taurus cDNA clone IMAGE (gb|DT855280.1|), 
blast E-value=1e-25, identity=91.58%

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


               
               319-301, UMC-bof_0B01-006-d12 Ovarian follicle early selected bof Bos taurus 
(gb|CX954767.1|), blast E-value=1e-25, identity=91.58% 
               

               
               319-301, 1359740 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN531768.1|), 
blast E-value=1e-25, identity=91.58% 
               

               
               319-301, 1361276 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN533160.1|), 
blast E-value=1e-25, identity=91.58% 
               

               
               319-301, LB00416.CR_M06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT832504.1|), 
blast E-value=1e-25, identity=91.58% 
               

               
               319-301, LB00420.CR_M07 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT833382.1|), 
blast E-value=1e-25, identity=91.58% 
               

               
               319-301, LB00520.CR_E15 GC_BGC-05 Bos taurus cDNA clone IMAGE (gb|DT855280.1|), 
blast E-value=1e-25, identity=91.58%

Aligned organism(s): 12 entry(ies)

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Aligned organism(s): 12 entry(ies)

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               91-579, gnl|bosTau2|chr2 (75736558-75736071)
               

               
               91-579, gnl|canFam2|chr2 (72281291-72280865)
               

               
               91-579, gnl|dasNov1|scaffold_33963 (4173-4620)
               

               
               91-579, gnl|Hg17|chr1 (31862299-31861813)
               

               
               91-579, gnl|hg17|chr12 (9012884-9013319)
               

               
               91-579, gnl|loxAfr1|scaffold_104242 (1159-1601)
               

               
               91-579, gnl|mm7|chr4 (129467281-129466851)
               

               
               91-579, gnl|Mm7|chr4 (129466797-129467278)
               

               
               91-579, gnl|monDom2|scaffold_43 (8113418-8112891)
               

               
               91-579, gnl|panTro1|chrUn_random (58089966-58089531)
               

               
               91-579, gnl|rheMac2|chr11 (9115006-9115441)
               

               
               91-579, gnl|rn3|chr5 (149056275-149055846)

Aligned organism(s): 12 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


               
               91-579, gnl|bosTau2|chr2 (75736558-75736071)
               

               
               91-579, gnl|canFam2|chr2 (72281291-72280865)
               

               
               91-579, gnl|dasNov1|scaffold_33963 (4173-4620)
               

               
               91-579, gnl|Hg17|chr1 (31862299-31861813)
               

               
               91-579, gnl|hg17|chr12 (9012884-9013319)
               

               
               91-579, gnl|loxAfr1|scaffold_104242 (1159-1601)
               

               
               91-579, gnl|mm7|chr4 (129467281-129466851)
               

               
               91-579, gnl|Mm7|chr4 (129466797-129467278)
               

               
               91-579, gnl|monDom2|scaffold_43 (8113418-8112891)
               

               
               91-579, gnl|panTro1|chrUn_random (58089966-58089531)
               

               
               91-579, gnl|rheMac2|chr11 (9115006-9115441)
               

               
               91-579, gnl|rn3|chr5 (149056275-149055846)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               fhi (0.169578)

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


               
               fhi (0.169578)

	159-269, - strand, RNAz p=0.654282
	207-521, - strand, RNAz p=0.996107
	413-514, - strand, RNAz p=0.966428

	319-301, UMC-bof_0B01-006-d12 Ovarian follicle early selected bof Bos taurus (gb\|CX954767.1\|), blast E-value=1e-25, identity=91.58%
	319-301, 1359740 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN531768.1\|), blast E-value=1e-25, identity=91.58%
	319-301, 1361276 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN533160.1\|), blast E-value=1e-25, identity=91.58%
	319-301, LB00416.CR_M06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb\|DT832504.1\|), blast E-value=1e-25, identity=91.58%
	319-301, LB00420.CR_M07 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb\|DT833382.1\|), blast E-value=1e-25, identity=91.58%
	319-301, LB00520.CR_E15 GC_BGC-05 Bos taurus cDNA clone IMAGE (gb\|DT855280.1\|), blast E-value=1e-25, identity=91.58%

	91-579, gnl\|bosTau2\|chr2 (75736558-75736071)
	91-579, gnl\|canFam2\|chr2 (72281291-72280865)
	91-579, gnl\|dasNov1\|scaffold_33963 (4173-4620)
	91-579, gnl\|Hg17\|chr1 (31862299-31861813)
	91-579, gnl\|hg17\|chr12 (9012884-9013319)
	91-579, gnl\|loxAfr1\|scaffold_104242 (1159-1601)
	91-579, gnl\|mm7\|chr4 (129467281-129466851)
	91-579, gnl\|Mm7\|chr4 (129466797-129467278)
	91-579, gnl\|monDom2\|scaffold_43 (8113418-8112891)
	91-579, gnl\|panTro1\|chrUn_random (58089966-58089531)
	91-579, gnl\|rheMac2\|chr11 (9115006-9115441)
	91-579, gnl\|rn3\|chr5 (149056275-149055846)