Non-Coding RNA Search

Ss1.1-Mixc-0026h16.3

Sequence:


               
               GACCACGAGAGTTGGGCCTCTCAGAGGACCACGTCATCTGGGATGGGTCTTTGGCAGAGC
ATGGTGGGCTGGATCTCTGGAAGAATAAACCACCCAAGAGCCAGACCTCCAGTGATAAAA
GCTCCAGAGATAGGACCTCCAATGAATCTAGTCATGAAGGGTGGAAAACCCAGAAGACTG
TACCGTGGAAATCAAGGCCACCTGAGAAACTGTCTTCCACAGGGTCAGACCACACAGCAG
AGGACCACTGGAGGGGCAGGCCGTGGAAAACAGGACCACCAGGATAGACCCTACAGAACC
AGGGAGGACCAGGTTCCAAAGGGGGATGCTGTAAAAGGGCAACGAGGGAGACAGGACCTC
ATCCTAACTCCCTGGTACCAGCTCTGCCTCCTGCCCCTGGCCATTGGGAGGTAATGAGGC
AAAGAGAAGCTAGAGCACAGGGCTGGCACCTGCGGGGGGAATGGAAGGAGGAGGATGCTC
TTATCCTCAGCCTGTGGCTCAATCCAAATTTGGGGACAGGGAGGTACCTGGGGTGAGTGA
AGTTGGCAGGCCTGATGGAGAATAAAGGTTTTCCTTAGCTTCTGAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GACCACGAGAGTTGGGCCTCTCAGAGGACCACGTCATCTGGGATGGGTCTTTGGCAGAGC
ATGGTGGGCTGGATCTCTGGAAGAATAAACCACCCAAGAGCCAGACCTCCAGTGATAAAA
GCTCCAGAGATAGGACCTCCAATGAATCTAGTCATGAAGGGTGGAAAACCCAGAAGACTG
TACCGTGGAAATCAAGGCCACCTGAGAAACTGTCTTCCACAGGGTCAGACCACACAGCAG
AGGACCACTGGAGGGGCAGGCCGTGGAAAACAGGACCACCAGGATAGACCCTACAGAACC
AGGGAGGACCAGGTTCCAAAGGGGGATGCTGTAAAAGGGCAACGAGGGAGACAGGACCTC
ATCCTAACTCCCTGGTACCAGCTCTGCCTCCTGCCCCTGGCCATTGGGAGGTAATGAGGC
AAAGAGAAGCTAGAGCACAGGGCTGGCACCTGCGGGGGGAATGGAAGGAGGAGGATGCTC
TTATCCTCAGCCTGTGGCTCAATCCAAATTTGGGGACAGGGAGGTACCTGGGGTGAGTGA
AGTTGGCAGGCCTGATGGAGAATAAAGGTTTTCCTTAGCTTCTGAAAA

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               42-195, - strand, RNAz p=0.99336
               

               
               54-209, - strand, RNAz p=0.996013
               

               
               276-468, - strand, RNAz p=0.999754
               

               
               290-450, - strand, RNAz p=0.999991

Predicted RNA structure(s): 4 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


               
               42-195, - strand, RNAz p=0.99336
               

               
               54-209, - strand, RNAz p=0.996013
               

               
               276-468, - strand, RNAz p=0.999754
               

               
               290-450, - strand, RNAz p=0.999991

Predicted microRNA(s): 4 entry(ies)

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Predicted microRNA(s): 4 entry(ies)

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               365-450, - strand, RNAmicro p=0.999995
               

               
               363-493, - strand, RNAmicro p=0.999979
               

               
               73-192, - strand, RNAmicro p=0.998347
               

               
               364-481, + strand, RNAmicro p=0.978444

Predicted microRNA(s): 4 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


               
               365-450, - strand, RNAmicro p=0.999995
               

               
               363-493, - strand, RNAmicro p=0.999979
               

               
               73-192, - strand, RNAmicro p=0.998347
               

               
               364-481, + strand, RNAmicro p=0.978444

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               290-450, UMC-pd3end1-002-a07 Endometrium gilt D3 of estrous cycle pd3end Sus 
(gb|CO988026.1|), blast E-value=0, identity=100% 
               

               
               296-399, 1393840 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN544835.1|), 
blast E-value=1e-26, identity=90.38% 
               

               
               296-399, 1394642 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN545575.1|), 
blast E-value=1e-26, identity=90.38% 
               

               
               296-399, 1477606 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT894910.1|), 
blast E-value=1e-26, identity=90.38% 
               

               
               296-399, LB02629.CR_M24 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV884192.1|), 
blast E-value=1e-26, identity=90.38% 
               

               
               296-399, 1599822 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY462627.1|), 
blast E-value=1e-26, identity=90.38%

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


               
               290-450, UMC-pd3end1-002-a07 Endometrium gilt D3 of estrous cycle pd3end Sus 
(gb|CO988026.1|), blast E-value=0, identity=100% 
               

               
               296-399, 1393840 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN544835.1|), 
blast E-value=1e-26, identity=90.38% 
               

               
               296-399, 1394642 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN545575.1|), 
blast E-value=1e-26, identity=90.38% 
               

               
               296-399, 1477606 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT894910.1|), 
blast E-value=1e-26, identity=90.38% 
               

               
               296-399, LB02629.CR_M24 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV884192.1|), 
blast E-value=1e-26, identity=90.38% 
               

               
               296-399, 1599822 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY462627.1|), 
blast E-value=1e-26, identity=90.38%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               3-566, gnl|bosTau2|chr2 (73501827-73502392)
               

               
               3-566, gnl|Hg17|chr1 (32342486-32343303)
               

               
               3-566, gnl|Mm7|chr4 (129061308-129060778)
               


               
               20-450, gnl|bosTau2|chr14 (30790878-30791310)
               

               
               20-450, gnl|Hg17|chr1 (32342500-32342940)
               

               
               20-450, gnl|Mm7|chr4 (129061291-129060868)

Aligned organism(s): 6 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


               
               3-566, gnl|bosTau2|chr2 (73501827-73502392)
               

               
               3-566, gnl|Hg17|chr1 (32342486-32343303)
               

               
               3-566, gnl|Mm7|chr4 (129061308-129060778)
               


               
               20-450, gnl|bosTau2|chr14 (30790878-30791310)
               

               
               20-450, gnl|Hg17|chr1 (32342500-32342940)
               

               
               20-450, gnl|Mm7|chr4 (129061291-129060868)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               cga (0.279096)
               

               
               eye (0.170503)
               

               
               nmm (0.132802)
               

               
               thg (0.126791)

Expressed library(ies): 4 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


               
               cga (0.279096)
               

               
               eye (0.170503)
               

               
               nmm (0.132802)
               

               
               thg (0.126791)

	42-195, - strand, RNAz p=0.99336
	54-209, - strand, RNAz p=0.996013
	276-468, - strand, RNAz p=0.999754
	290-450, - strand, RNAz p=0.999991

	365-450, - strand, RNAmicro p=0.999995
	363-493, - strand, RNAmicro p=0.999979
	73-192, - strand, RNAmicro p=0.998347
	364-481, + strand, RNAmicro p=0.978444

	290-450, UMC-pd3end1-002-a07 Endometrium gilt D3 of estrous cycle pd3end Sus (gb\|CO988026.1\|), blast E-value=0, identity=100%
	296-399, 1393840 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN544835.1\|), blast E-value=1e-26, identity=90.38%
	296-399, 1394642 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN545575.1\|), blast E-value=1e-26, identity=90.38%
	296-399, 1477606 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT894910.1\|), blast E-value=1e-26, identity=90.38%
	296-399, LB02629.CR_M24 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV884192.1\|), blast E-value=1e-26, identity=90.38%
	296-399, 1599822 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY462627.1\|), blast E-value=1e-26, identity=90.38%

	3-566, gnl\|bosTau2\|chr2 (73501827-73502392)
	3-566, gnl\|Hg17\|chr1 (32342486-32343303)
	3-566, gnl\|Mm7\|chr4 (129061308-129060778)

	20-450, gnl\|bosTau2\|chr14 (30790878-30791310)
	20-450, gnl\|Hg17\|chr1 (32342500-32342940)
	20-450, gnl\|Mm7\|chr4 (129061291-129060868)