Non-Coding RNA Search

Ss1.1-rhlv40b_d23.5

Sequence:


               
               AAATAAAAAATAAAAATAAAAAACTTTTTTAAATGAACATGAATAGAATTTTGCAAATTT
CACATTTTCCAAGATTTATTCAAGGAAACGAAATGCCTATGTTCAACCACTGGTGTCAAC
GAACAAGACAGATATACTGGACCCTCTGGGGAGGAGCCCCGAGCAGTGGGACGGCCGTCC
CAGAGGCCTCGCCAGGAGCGTGGGTCCACCTGGCTCTGAGCTTTTCCAGCCGCCTGGTCT
GCCTGCCTCGCTCAGGGATGCCAGACCAGGCTTCGGAAACGTTCATTCAACCTCAAACTT
CTGCATAAAAAATAGAATGAATCATTTTGCTCTGATGAAATGTAGGCCTTACTTGTATAT
AAGACTGGTCCTGCCTTCGGTCTGGATCCCCACTGCCTTCCTTCCCACTCCCGACCACCG
CCCGGGGGCTTCCTTTTGGGGGTCAGAGGGGTGTGCCCGGCCACCAAGCAGGACATCGGG
TCGGGTCCCGCCCCCCTCCCCCCACAGCCCACCCCCCAAGCCGTCCATCAGATTGTTGAG
CGGTATACAGTCAGATGAAAATACTGTAAATGCACTCACTGGGGGTTTTTTGGTTTTATT
TCATATCATGTGCAATGTTGTGGCTTTAACATTTTATGCAACTATTTATGAAGACCTCTG
TTGTACCTGTAATAAATATATAGAAAAAGCACATACTTCGTACGGTGAGCTTTATGGTTT
TGTGCGTGTGTTGGGGGCGGGGTGGGGGGGGTCGTAGCTCTGTGCCATCAGTTCAAGGAC
ACTGAACTCTTCGTGAAATTTGTCAGTTTTGAGGACTGTAAAAAGTGATTTCATACTCTG
AATCTAAAACTGGATAATAGGGTAATGTTTTAAATTTTATTATGCTATTATTCAGAATGC
CAAAGTATTATTTTTTTTTTTCCCAAAATCAGTCTGGACATTTCCTACTTTTTAGACTTT
TTTGACATTCAACTTTCTGTACAAAAAAAAAAATGGCTGGATTTTGAGCTTTGGGTAAGA
AACACAAGCCAATTAAGCACTCGCTGTCTCAAGACACTGCAGCGTCGGCGTCTGCAGCAC
TGTGGCAGAAAC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAATAAAAAATAAAAATAAAAAACTTTTTTAAATGAACATGAATAGAATTTTGCAAATTT
CACATTTTCCAAGATTTATTCAAGGAAACGAAATGCCTATGTTCAACCACTGGTGTCAAC
GAACAAGACAGATATACTGGACCCTCTGGGGAGGAGCCCCGAGCAGTGGGACGGCCGTCC
CAGAGGCCTCGCCAGGAGCGTGGGTCCACCTGGCTCTGAGCTTTTCCAGCCGCCTGGTCT
GCCTGCCTCGCTCAGGGATGCCAGACCAGGCTTCGGAAACGTTCATTCAACCTCAAACTT
CTGCATAAAAAATAGAATGAATCATTTTGCTCTGATGAAATGTAGGCCTTACTTGTATAT
AAGACTGGTCCTGCCTTCGGTCTGGATCCCCACTGCCTTCCTTCCCACTCCCGACCACCG
CCCGGGGGCTTCCTTTTGGGGGTCAGAGGGGTGTGCCCGGCCACCAAGCAGGACATCGGG
TCGGGTCCCGCCCCCCTCCCCCCACAGCCCACCCCCCAAGCCGTCCATCAGATTGTTGAG
CGGTATACAGTCAGATGAAAATACTGTAAATGCACTCACTGGGGGTTTTTTGGTTTTATT
TCATATCATGTGCAATGTTGTGGCTTTAACATTTTATGCAACTATTTATGAAGACCTCTG
TTGTACCTGTAATAAATATATAGAAAAAGCACATACTTCGTACGGTGAGCTTTATGGTTT
TGTGCGTGTGTTGGGGGCGGGGTGGGGGGGGTCGTAGCTCTGTGCCATCAGTTCAAGGAC
ACTGAACTCTTCGTGAAATTTGTCAGTTTTGAGGACTGTAAAAAGTGATTTCATACTCTG
AATCTAAAACTGGATAATAGGGTAATGTTTTAAATTTTATTATGCTATTATTCAGAATGC
CAAAGTATTATTTTTTTTTTTCCCAAAATCAGTCTGGACATTTCCTACTTTTTAGACTTT
TTTGACATTCAACTTTCTGTACAAAAAAAAAAATGGCTGGATTTTGAGCTTTGGGTAAGA
AACACAAGCCAATTAAGCACTCGCTGTCTCAAGACACTGCAGCGTCGGCGTCTGCAGCAC
TGTGGCAGAAAC

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

More info

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

Help | Less info


               
               806-965, - strand, RNAz p=0.957885
               

               
               983-1083, - strand, RNAz p=0.99996

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


               
               806-965, - strand, RNAz p=0.957885
               

               
               983-1083, - strand, RNAz p=0.99996

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               806-910, 7101-12 Mouse E14.5 retina lambda ZAP II Library Mus musculus cDNA, 
(gb|BU924701.1|), blast E-value=0, identity=99.05% 
               

               
               806-962, fs213.z3 fs 103-105d fetal sheep skin library Ovis aries cDNA, mRNA 
(gb|CF118067.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               806-910, UI-M-HK0-cms-i-04-0-UI.r1 NIH_BMAP_HK0 Mus musculus cDNA clone 
(gb|CF949355.1|), blast E-value=0, identity=99.05% 
               

               
               806-910, MNS41226 Mouse Neurosphere Normalized cDNA library Mus musculus 
(gb|CX224169.1|), blast E-value=0, identity=99.05% 
               

               
               806-910, DS027C_A10 Eppig/Hampl oocyte Mus musculus cDNA clone DS027C_A10 
(gb|DV647344.1|), blast E-value=0, identity=99.05% 
               

               
               806-965, PADT0811002_P14F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB412157.1|), blast E-value=0, identity=93.12%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               806-910, 7101-12 Mouse E14.5 retina lambda ZAP II Library Mus musculus cDNA, 
(gb|BU924701.1|), blast E-value=0, identity=99.05% 
               

               
               806-962, fs213.z3 fs 103-105d fetal sheep skin library Ovis aries cDNA, mRNA 
(gb|CF118067.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               806-910, UI-M-HK0-cms-i-04-0-UI.r1 NIH_BMAP_HK0 Mus musculus cDNA clone 
(gb|CF949355.1|), blast E-value=0, identity=99.05% 
               

               
               806-910, MNS41226 Mouse Neurosphere Normalized cDNA library Mus musculus 
(gb|CX224169.1|), blast E-value=0, identity=99.05% 
               

               
               806-910, DS027C_A10 Eppig/Hampl oocyte Mus musculus cDNA clone DS027C_A10 
(gb|DV647344.1|), blast E-value=0, identity=99.05% 
               

               
               806-965, PADT0811002_P14F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB412157.1|), blast E-value=0, identity=93.12%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1083, gnl|bosTau2|chr20 (34810620-34811719)
               

               
               1-1083, gnl|Hg17|chr5 (14561789-14562853)
               

               
               1-1083, gnl|Mm7|chr15 (27835336-27834239)

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


               
               1-1083, gnl|bosTau2|chr20 (34810620-34811719)
               

               
               1-1083, gnl|Hg17|chr5 (14561789-14562853)
               

               
               1-1083, gnl|Mm7|chr15 (27835336-27834239)

Expressed library(ies): 7 entry(ies)

More info

Expressed library(ies): 7 entry(ies)

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               fce (0.271592)
               

               
               mas (0.210305)
               

               
               gul (0.177588)
               

               
               rec (0.17307)
               

               
               hlv (0.139256)
               

               
               che (0.136314)
               

               
               lyg (0.133103)

Expressed library(ies): 7 entry(ies)

Help | Less info

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


               
               fce (0.271592)
               

               
               mas (0.210305)
               

               
               gul (0.177588)
               

               
               rec (0.17307)
               

               
               hlv (0.139256)
               

               
               che (0.136314)
               

               
               lyg (0.133103)

	806-965, - strand, RNAz p=0.957885
	983-1083, - strand, RNAz p=0.99996

	806-910, 7101-12 Mouse E14.5 retina lambda ZAP II Library Mus musculus cDNA, (gb\|BU924701.1\|), blast E-value=0, identity=99.05%
	806-962, fs213.z3 fs 103-105d fetal sheep skin library Ovis aries cDNA, mRNA (gb\|CF118067.1\|), blast E-value=0.0000000000007, identity=100%
	806-910, UI-M-HK0-cms-i-04-0-UI.r1 NIH_BMAP_HK0 Mus musculus cDNA clone (gb\|CF949355.1\|), blast E-value=0, identity=99.05%
	806-910, MNS41226 Mouse Neurosphere Normalized cDNA library Mus musculus (gb\|CX224169.1\|), blast E-value=0, identity=99.05%
	806-910, DS027C_A10 Eppig/Hampl oocyte Mus musculus cDNA clone DS027C_A10 (gb\|DV647344.1\|), blast E-value=0, identity=99.05%
	806-965, PADT0811002_P14F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB412157.1\|), blast E-value=0, identity=93.12%

	1-1083, gnl\|bosTau2\|chr20 (34810620-34811719)
	1-1083, gnl\|Hg17\|chr5 (14561789-14562853)
	1-1083, gnl\|Mm7\|chr15 (27835336-27834239)

	fce (0.271592)
	mas (0.210305)
	gul (0.177588)
	rec (0.17307)
	hlv (0.139256)
	che (0.136314)
	lyg (0.133103)