Non-Coding RNA Search

Ss1.1-rpigcb_17545.5

Sequence:


               
               ATGTGAACCCCCAAGGGTTGCTCCAAATAAGATTAGCCCCTTCTGGGTCCCTGAAGGCCA
ATACCATGATAAGTAATAGCAACCACTATAGGAATAAAGGCAGAGGATGCACTGTATTAA
AAGGCACTTTATAAACACCTGCCCTTGAGTCTTAAATGCTGACACATGGCAAGGATAGAA
CATGTGAGAGAAAGGACATTTGGATGGAGTATTTATGCATAAGCGAGCTCAAAGGTTAAA
GTTTCTATGTGAAAGAAATGATAAGGTATTTTTTGCATCCGTGCGATCTGGAGGAAGTAG
CCAAGTGTTTTTCATGACCCTCAACAGAAATTCCATGATGAACTGGTAACAGAAGAGCAC
TTGGCACTTATCTTCATGGCGTTATTTCTAATTTAAAAGAACATAACTCATGTGGACTTA
TGCCAGTCTAGAGGCAGAATCAGAAGGCTTGGTTGAACATACCGCTTTCCCCTTTTCCTC
TCCCTCTACCCGTCCCAATACAGTCCATCTTTCAATGTTGCAGCCTGGTGAGAAGGAGAG
AAAAGGGTGGCAGGAATTTCCAGGAGATCCCCAAGAATGCTGCGTTGTCTGTGGACAAAG
ATGGACCATGTGCCCTTCGGAGTTAGGGATAGAAACAAATATTGTGTGCTCTTATGATTA
AGCTGTGTTACGGTGGATTGTTTTGTTTTGTTACTTTTTTTCTTTACCCCCTTACTTTGT
AAGAATGGGGAGAGAATGCATACTGAGAAAAAATGTCTGTTTTTAATTCTGTCTGCCTGG
TAGGTTTAAGTATATGATATGTTGTAAAATTTCCAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ATGTGAACCCCCAAGGGTTGCTCCAAATAAGATTAGCCCCTTCTGGGTCCCTGAAGGCCA
ATACCATGATAAGTAATAGCAACCACTATAGGAATAAAGGCAGAGGATGCACTGTATTAA
AAGGCACTTTATAAACACCTGCCCTTGAGTCTTAAATGCTGACACATGGCAAGGATAGAA
CATGTGAGAGAAAGGACATTTGGATGGAGTATTTATGCATAAGCGAGCTCAAAGGTTAAA
GTTTCTATGTGAAAGAAATGATAAGGTATTTTTTGCATCCGTGCGATCTGGAGGAAGTAG
CCAAGTGTTTTTCATGACCCTCAACAGAAATTCCATGATGAACTGGTAACAGAAGAGCAC
TTGGCACTTATCTTCATGGCGTTATTTCTAATTTAAAAGAACATAACTCATGTGGACTTA
TGCCAGTCTAGAGGCAGAATCAGAAGGCTTGGTTGAACATACCGCTTTCCCCTTTTCCTC
TCCCTCTACCCGTCCCAATACAGTCCATCTTTCAATGTTGCAGCCTGGTGAGAAGGAGAG
AAAAGGGTGGCAGGAATTTCCAGGAGATCCCCAAGAATGCTGCGTTGTCTGTGGACAAAG
ATGGACCATGTGCCCTTCGGAGTTAGGGATAGAAACAAATATTGTGTGCTCTTATGATTA
AGCTGTGTTACGGTGGATTGTTTTGTTTTGTTACTTTTTTTCTTTACCCCCTTACTTTGT
AAGAATGGGGAGAGAATGCATACTGAGAAAAAATGTCTGTTTTTAATTCTGTCTGCCTGG
TAGGTTTAAGTATATGATATGTTGTAAAATTTCCAA

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

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

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               261-420, - strand, RNAz p=0.946738
               

               
               460-615, - strand, RNAz p=0.927475

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


               
               261-420, - strand, RNAz p=0.946738
               

               
               460-615, - strand, RNAz p=0.927475

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               304-451, + strand, RNAmicro p=0.995251
               

               
               487-577, + strand, RNAmicro p=0.936309
               

               
               356-480, - strand, RNAmicro p=0.900094

Predicted microRNA(s): 3 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


               
               304-451, + strand, RNAmicro p=0.995251
               

               
               487-577, + strand, RNAmicro p=0.936309
               

               
               356-480, - strand, RNAmicro p=0.900094

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               261-420, CJ433204 macaque brain cDNA library QccE Macaca fascicularis cDNA 
(dbj|CJ433204.1|), blast E-value=0, identity=100% 
               

               
               261-420, CJ433220 macaque brain cDNA library QccE Macaca fascicularis cDNA 
(dbj|CJ433220.1|), blast E-value=0, identity=100% 
               

               
               261-420, 712389 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB455256.1|), 
blast E-value=0, identity=100% 
               

               
               261-420, 4124279 BARC 8BOV Bos taurus cDNA clone 8BOV_35K19 5', mRNA 
(gb|CN789781.1|), blast E-value=0, identity=100% 
               

               
               261-420, LB03015.CR_L14 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV929135.1|), 
blast E-value=0, identity=100% 
               

               
               261-420, 1601538 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY462862.1|), 
blast E-value=0, identity=100%

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


               
               261-420, CJ433204 macaque brain cDNA library QccE Macaca fascicularis cDNA 
(dbj|CJ433204.1|), blast E-value=0, identity=100% 
               

               
               261-420, CJ433220 macaque brain cDNA library QccE Macaca fascicularis cDNA 
(dbj|CJ433220.1|), blast E-value=0, identity=100% 
               

               
               261-420, 712389 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB455256.1|), 
blast E-value=0, identity=100% 
               

               
               261-420, 4124279 BARC 8BOV Bos taurus cDNA clone 8BOV_35K19 5', mRNA 
(gb|CN789781.1|), blast E-value=0, identity=100% 
               

               
               261-420, LB03015.CR_L14 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV929135.1|), 
blast E-value=0, identity=100% 
               

               
               261-420, 1601538 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY462862.1|), 
blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               3-816, gnl|bosTau2|chr1 (61825441-61824598)
               

               
               3-816, gnl|Hg17|chr3 (172264732-172263914)
               

               
               3-816, gnl|Mm7|chr3 (28483471-28484178)

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


               
               3-816, gnl|bosTau2|chr1 (61825441-61824598)
               

               
               3-816, gnl|Hg17|chr3 (172264732-172263914)
               

               
               3-816, gnl|Mm7|chr3 (28483471-28484178)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               cty (0.10408)

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


               
               cty (0.10408)

	261-420, - strand, RNAz p=0.946738
	460-615, - strand, RNAz p=0.927475

	304-451, + strand, RNAmicro p=0.995251
	487-577, + strand, RNAmicro p=0.936309
	356-480, - strand, RNAmicro p=0.900094

	261-420, CJ433204 macaque brain cDNA library QccE Macaca fascicularis cDNA (dbj\|CJ433204.1\|), blast E-value=0, identity=100%
	261-420, CJ433220 macaque brain cDNA library QccE Macaca fascicularis cDNA (dbj\|CJ433220.1\|), blast E-value=0, identity=100%
	261-420, 712389 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB455256.1\|), blast E-value=0, identity=100%
	261-420, 4124279 BARC 8BOV Bos taurus cDNA clone 8BOV_35K19 5', mRNA (gb\|CN789781.1\|), blast E-value=0, identity=100%
	261-420, LB03015.CR_L14 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV929135.1\|), blast E-value=0, identity=100%
	261-420, 1601538 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY462862.1\|), blast E-value=0, identity=100%

	3-816, gnl\|bosTau2\|chr1 (61825441-61824598)
	3-816, gnl\|Hg17\|chr3 (172264732-172263914)
	3-816, gnl\|Mm7\|chr3 (28483471-28484178)