Non-Coding RNA Search

Ss1.1-rlyg12_c20.5

Sequence:


               
               GTGATCCACTAAGGAAATGTTTTAACAGCTAGCGACCACTGCTTGCCTGAAAGGGCGATC
TTAAATTTGGTGCAGAAAAAAACAAAAACAAAAACAAAAAAAAAACAAAAAAAAAAGAAT
AAAAAGAAAAAAAGTAAACAACATTTGAAGGCCTACAGTGTGTATAGAGACAACCTCATC
ACAAGATCATAAGTGTTACCGTTTTAGGGAATCAAGATATTCTATTTAATAGAGCTATAG
TAGATATAGTCAATTAAACCTGATCTCAAAGCTCGAAGAAGCTGAGCAAAACAGGGAAAG
ATTGTTATATTCATCTTTATGAAATTGGGATGGAATTGCTATGCAGAATTGAGGTTTGTG
GCTTCACTGTTCATCTTAGGGTGCATGACAAGCTCCCTTCTCTTAAGAAAGGAAAAAATT
GATCACCCTAGCTGCAGTGATGCCTAGAAACCGAATTGTATCCACACTAGTCAGTCGAAG
CTAAAGGATTTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTGATCCACTAAGGAAATGTTTTAACAGCTAGCGACCACTGCTTGCCTGAAAGGGCGATC
TTAAATTTGGTGCAGAAAAAAACAAAAACAAAAACAAAAAAAAAACAAAAAAAAAAGAAT
AAAAAGAAAAAAAGTAAACAACATTTGAAGGCCTACAGTGTGTATAGAGACAACCTCATC
ACAAGATCATAAGTGTTACCGTTTTAGGGAATCAAGATATTCTATTTAATAGAGCTATAG
TAGATATAGTCAATTAAACCTGATCTCAAAGCTCGAAGAAGCTGAGCAAAACAGGGAAAG
ATTGTTATATTCATCTTTATGAAATTGGGATGGAATTGCTATGCAGAATTGAGGTTTGTG
GCTTCACTGTTCATCTTAGGGTGCATGACAAGCTCCCTTCTCTTAAGAAAGGAAAAAATT
GATCACCCTAGCTGCAGTGATGCCTAGAAACCGAATTGTATCCACACTAGTCAGTCGAAG
CTAAAGGATTTT

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

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

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               1-119, + strand, RNAz p=0.951055
               

               
               315-470, - strand, RNAz p=0.998804

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


               
               1-119, + strand, RNAz p=0.951055
               

               
               315-470, - strand, RNAz p=0.998804

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               394-508, + strand, RNAmicro p=1
               

               
               393-519, - strand, RNAmicro p=0.999873

Predicted microRNA(s): 2 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


               
               394-508, + strand, RNAmicro p=1
               

               
               393-519, - strand, RNAmicro p=0.999873

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               319-470, 4092695 BARC 10BOV Bos taurus cDNA clone 10BOV30_O22 5', mRNA 
(gb|CK952787.1|), blast E-value=0, identity=92.76% 
               

               
               319-470, 4120475 BARC 8BOV Bos taurus cDNA clone 8BOV_29B19 5', mRNA 
(gb|CN786477.1|), blast E-value=0, identity=92.76% 
               

               
               319-470, LB0171.CR_M20 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DT807482.1|), 
blast E-value=0, identity=92.76% 
               

               
               319-470, Hw_liver_44_050806_A02 Bos taurus CF-24-HW liver cDNA library Bos 
(gb|DV786506.1|), blast E-value=0, identity=92.76% 
               

               
               319-470, LB01938.CR_N06 GC_BGC-19 Bos taurus cDNA clone IMAGE (gb|EE230164.1|), 
blast E-value=0, identity=92.76% 
               

               
               319-470, LB01735.CR_J19 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|EE334150.1|), 
blast E-value=0, identity=92.76%

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


               
               319-470, 4092695 BARC 10BOV Bos taurus cDNA clone 10BOV30_O22 5', mRNA 
(gb|CK952787.1|), blast E-value=0, identity=92.76% 
               

               
               319-470, 4120475 BARC 8BOV Bos taurus cDNA clone 8BOV_29B19 5', mRNA 
(gb|CN786477.1|), blast E-value=0, identity=92.76% 
               

               
               319-470, LB0171.CR_M20 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DT807482.1|), 
blast E-value=0, identity=92.76% 
               

               
               319-470, Hw_liver_44_050806_A02 Bos taurus CF-24-HW liver cDNA library Bos 
(gb|DV786506.1|), blast E-value=0, identity=92.76% 
               

               
               319-470, LB01938.CR_N06 GC_BGC-19 Bos taurus cDNA clone IMAGE (gb|EE230164.1|), 
blast E-value=0, identity=92.76% 
               

               
               319-470, LB01735.CR_J19 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|EE334150.1|), 
blast E-value=0, identity=92.76%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-492, gnl|bosTau2|chr16 (15110508-15110986)
               

               
               1-492, gnl|Hg17|chr9 (77563298-77562835)
               

               
               1-492, gnl|Mm7|chr19 (16086832-16087366)

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


               
               1-492, gnl|bosTau2|chr16 (15110508-15110986)
               

               
               1-492, gnl|Hg17|chr9 (77563298-77562835)
               

               
               1-492, gnl|Mm7|chr19 (16086832-16087366)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               nlu (0.191681)
               

               
               lyg (0.133103)

Expressed library(ies): 2 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


               
               nlu (0.191681)
               

               
               lyg (0.133103)

	1-119, + strand, RNAz p=0.951055
	315-470, - strand, RNAz p=0.998804

	394-508, + strand, RNAmicro p=1
	393-519, - strand, RNAmicro p=0.999873

	319-470, 4092695 BARC 10BOV Bos taurus cDNA clone 10BOV30_O22 5', mRNA (gb\|CK952787.1\|), blast E-value=0, identity=92.76%
	319-470, 4120475 BARC 8BOV Bos taurus cDNA clone 8BOV_29B19 5', mRNA (gb\|CN786477.1\|), blast E-value=0, identity=92.76%
	319-470, LB0171.CR_M20 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|DT807482.1\|), blast E-value=0, identity=92.76%
	319-470, Hw_liver_44_050806_A02 Bos taurus CF-24-HW liver cDNA library Bos (gb\|DV786506.1\|), blast E-value=0, identity=92.76%
	319-470, LB01938.CR_N06 GC_BGC-19 Bos taurus cDNA clone IMAGE (gb\|EE230164.1\|), blast E-value=0, identity=92.76%
	319-470, LB01735.CR_J19 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|EE334150.1\|), blast E-value=0, identity=92.76%

	1-492, gnl\|bosTau2\|chr16 (15110508-15110986)
	1-492, gnl\|Hg17\|chr9 (77563298-77562835)
	1-492, gnl\|Mm7\|chr19 (16086832-16087366)