Non-Coding RNA Search

Ss1.1-rnlu1815b_a6.5

Sequence:


               
               GCCCAGGCTGCTGCAAGGGGTGGGGCTTGCTCCCTAGAGAACCCTCACCCCAGGCACAAC
ATTCCAGCCCCAACCCCAGGCTGGAAGGCAGCAGAGCCAGCCTCCCAAGCAGATGGGAGG
CAGGCCCTGAGCTGGGGTGGCATGTGTCCTGAGGAGGCCTGGGCCAGGCCAGGGAGAGTG
ACCTCCCGTGTTGCTGGTGGCCACCCCTCCTGGCAGTGGCGGGGCCCAGACCCATGCCCG
ATCTCCCCTCTCTGTCGTTTTGCATGAACGTGAGGAGCAGCAGTTTTTGTTTATTCATTT
GGCCCAAAATCGCGTGTAGGATTCAAGGGTGTGGATTTTTAAACAATTTCTTTTTGTTTA
ATGGGGGACTAGGGACCACCCAGGACCAAGTGCCCAGGGGGCCAGGAGCAGTGTGGTGGT
GCCGCCTGGTCTGCATGCATGTGCGCGGCTGGGGCTGGGCCTGGCGGCTGGCAGTCATGG
TCGGGGTTGAGGGGGGATCTGTGCTCAGCTGATAACTGCCATGCACTGTACTGCACACGT
CCCCAGAGCCTACCGGGACCGTACGCTTTTCAGGGCATTTCTCCCTCTCCAGCCAGGGCC
TGTCTCCCACCTGCCTGGATGAGCCTCCTCCAAGGAAGTCCCAGGAGGACAGGGACCAGG
GAGGGCATGGACCCCACCTCCAGGGGCCCCCTCCCAGCCTGAGCCCTGCCCTCCAACATC
TGGAGGAGCCCCTGTAGGGTCTGGCTGAGCTCCCCACCCTTGCCTTTC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCCCAGGCTGCTGCAAGGGGTGGGGCTTGCTCCCTAGAGAACCCTCACCCCAGGCACAAC
ATTCCAGCCCCAACCCCAGGCTGGAAGGCAGCAGAGCCAGCCTCCCAAGCAGATGGGAGG
CAGGCCCTGAGCTGGGGTGGCATGTGTCCTGAGGAGGCCTGGGCCAGGCCAGGGAGAGTG
ACCTCCCGTGTTGCTGGTGGCCACCCCTCCTGGCAGTGGCGGGGCCCAGACCCATGCCCG
ATCTCCCCTCTCTGTCGTTTTGCATGAACGTGAGGAGCAGCAGTTTTTGTTTATTCATTT
GGCCCAAAATCGCGTGTAGGATTCAAGGGTGTGGATTTTTAAACAATTTCTTTTTGTTTA
ATGGGGGACTAGGGACCACCCAGGACCAAGTGCCCAGGGGGCCAGGAGCAGTGTGGTGGT
GCCGCCTGGTCTGCATGCATGTGCGCGGCTGGGGCTGGGCCTGGCGGCTGGCAGTCATGG
TCGGGGTTGAGGGGGGATCTGTGCTCAGCTGATAACTGCCATGCACTGTACTGCACACGT
CCCCAGAGCCTACCGGGACCGTACGCTTTTCAGGGCATTTCTCCCTCTCCAGCCAGGGCC
TGTCTCCCACCTGCCTGGATGAGCCTCCTCCAAGGAAGTCCCAGGAGGACAGGGACCAGG
GAGGGCATGGACCCCACCTCCAGGGGCCCCCTCCCAGCCTGAGCCCTGCCCTCCAACATC
TGGAGGAGCCCCTGTAGGGTCTGGCTGAGCTCCCCACCCTTGCCTTTC

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

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

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               3-193, - strand, RNAz p=0.999938
               

               
               590-764, - strand, RNAz p=0.998296

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


               
               3-193, - strand, RNAz p=0.999938
               

               
               590-764, - strand, RNAz p=0.998296

Predicted microRNA(s): 4 entry(ies)

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Predicted microRNA(s): 4 entry(ies)

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               688-796, - strand, RNAmicro p=0.999996
               

               
               88-250, - strand, RNAmicro p=0.999727
               

               
               88-146, + strand, RNAmicro p=0.996971
               

               
               696-768, + strand, RNAmicro p=0.987174

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


               
               688-796, - strand, RNAmicro p=0.999996
               

               
               88-250, - strand, RNAmicro p=0.999727
               

               
               88-146, + strand, RNAmicro p=0.996971
               

               
               696-768, + strand, RNAmicro p=0.987174

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               18-186, AV603646 Bos taurus kidney fetus Bos taurus cDNA clone E1KI017D11 
(dbj|AV603646.1|), blast E-value=2e-32, identity=86.39% 
               

               
               29-186, CR852870 Normalized and Subtracted bovine endometrium tissues 
(emb|CR852870.2|), blast E-value=4e-30, identity=86.71% 
               

               
               18-186, LB01719.CR_M17 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV816440.1|), 
blast E-value=3e-34, identity=86.98% 
               

               
               18-186, LB02748.CR_P24 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|EE348025.1|), 
blast E-value=3e-34, identity=86.98% 
               

               
               18-186, LB02756.CR_D15 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|EE349669.1|), 
blast E-value=3e-34, identity=86.98% 
               

               
               18-186, LB02958.CR_P08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357382.1|), 
blast E-value=3e-34, identity=86.98%

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


               
               18-186, AV603646 Bos taurus kidney fetus Bos taurus cDNA clone E1KI017D11 
(dbj|AV603646.1|), blast E-value=2e-32, identity=86.39% 
               

               
               29-186, CR852870 Normalized and Subtracted bovine endometrium tissues 
(emb|CR852870.2|), blast E-value=4e-30, identity=86.71% 
               

               
               18-186, LB01719.CR_M17 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV816440.1|), 
blast E-value=3e-34, identity=86.98% 
               

               
               18-186, LB02748.CR_P24 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|EE348025.1|), 
blast E-value=3e-34, identity=86.98% 
               

               
               18-186, LB02756.CR_D15 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|EE349669.1|), 
blast E-value=3e-34, identity=86.98% 
               

               
               18-186, LB02958.CR_P08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357382.1|), 
blast E-value=3e-34, identity=86.98%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               3-764, gnl|bosTau2|chr7 (26163893-26163138)
               

               
               3-764, gnl|Hg17|chr5 (175888111-175887368)
               

               
               3-764, gnl|Mm7|chr13 (53765512-53764735)

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


               
               3-764, gnl|bosTau2|chr7 (26163893-26163138)
               

               
               3-764, gnl|Hg17|chr5 (175888111-175887368)
               

               
               3-764, gnl|Mm7|chr13 (53765512-53764735)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               med (0.232504)
               

               
               mas (0.210305)
               

               
               nlu (0.191681)

Expressed library(ies): 3 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


               
               med (0.232504)
               

               
               mas (0.210305)
               

               
               nlu (0.191681)

	3-193, - strand, RNAz p=0.999938
	590-764, - strand, RNAz p=0.998296

	688-796, - strand, RNAmicro p=0.999996
	88-250, - strand, RNAmicro p=0.999727
	88-146, + strand, RNAmicro p=0.996971
	696-768, + strand, RNAmicro p=0.987174

	18-186, AV603646 Bos taurus kidney fetus Bos taurus cDNA clone E1KI017D11 (dbj\|AV603646.1\|), blast E-value=2e-32, identity=86.39%
	29-186, CR852870 Normalized and Subtracted bovine endometrium tissues (emb\|CR852870.2\|), blast E-value=4e-30, identity=86.71%
	18-186, LB01719.CR_M17 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|DV816440.1\|), blast E-value=3e-34, identity=86.98%
	18-186, LB02748.CR_P24 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|EE348025.1\|), blast E-value=3e-34, identity=86.98%
	18-186, LB02756.CR_D15 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|EE349669.1\|), blast E-value=3e-34, identity=86.98%
	18-186, LB02958.CR_P08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE357382.1\|), blast E-value=3e-34, identity=86.98%

	3-764, gnl\|bosTau2\|chr7 (26163893-26163138)
	3-764, gnl\|Hg17\|chr5 (175888111-175887368)
	3-764, gnl\|Mm7\|chr13 (53765512-53764735)