Non-Coding RNA Search

Ss1.1-rsug18_f20.5

Sequence:


               
               ATTCAATAAGTACTGTTTATATACCAGGATACGTGAAGATGTACATGTAATAGGTCACTT
TGCAACCTTGTAGCTATAAAATAAAAATTTTGTAGAACAGAAATAGCTTGTACTACTGAA
TTAACAAAAGTTATACTAAAGTATCATGTTTAAAAAAAAAATATATATATATACACACAC
AGAGTTGAGCTTGTTGCTGTTACCCTGTCTGGATTTGAAAAGTGTGCTGATTTATATATA
TATATATTATATACACACACACACACACACACACACACACACATATATATATACCGGCAA
ACATCTAAAATGGCCTAAAGCAGACATCTGTGTAATTACAGTTGCAAAATGAAGACATTT
GGGAAAGAACATTGTATCATAGTTCATTCATTTGCAGTGGATCTTTGTTCTTTTTTTACT
GTGGTAATTTTAGAAATGAGTGTCAAGTTTGAAATTAGATCTGCTACGTTGGGGTTTTGC
TGCTTGAACTCTGCACTGGGTCCTCAAATAAACCGATGTGAATGTAGTTTTTTCCCCTGT
GTGAAGCAGCAGCCACACCCCAACAGAATAGGAGGAAAAATCTAGAACTATTTCAAGTTT
TATCTTTTTGTATATGAAAATAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ATTCAATAAGTACTGTTTATATACCAGGATACGTGAAGATGTACATGTAATAGGTCACTT
TGCAACCTTGTAGCTATAAAATAAAAATTTTGTAGAACAGAAATAGCTTGTACTACTGAA
TTAACAAAAGTTATACTAAAGTATCATGTTTAAAAAAAAAATATATATATATACACACAC
AGAGTTGAGCTTGTTGCTGTTACCCTGTCTGGATTTGAAAAGTGTGCTGATTTATATATA
TATATATTATATACACACACACACACACACACACACACACACATATATATATACCGGCAA
ACATCTAAAATGGCCTAAAGCAGACATCTGTGTAATTACAGTTGCAAAATGAAGACATTT
GGGAAAGAACATTGTATCATAGTTCATTCATTTGCAGTGGATCTTTGTTCTTTTTTTACT
GTGGTAATTTTAGAAATGAGTGTCAAGTTTGAAATTAGATCTGCTACGTTGGGGTTTTGC
TGCTTGAACTCTGCACTGGGTCCTCAAATAAACCGATGTGAATGTAGTTTTTTCCCCTGT
GTGAAGCAGCAGCCACACCCCAACAGAATAGGAGGAAAAATCTAGAACTATTTCAAGTTT
TATCTTTTTGTATATGAAAATAAA

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               158-288, - strand, RNAz p=0.999893

Predicted RNA structure(s): 1 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


               
               158-288, - strand, RNAz p=0.999893

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               174-232, BX514441 Beddington mouse embryonic region Mus musculus cDNA clone 
(emb|BX514441.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, B0280A03-3 NIA Mouse Embryonic Germ Cell cDNA Library (Long) Mus 
(gb|CD547209.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, UI-M-HK0-cms-a-19-0-UI.r1 NIH_BMAP_HK0 Mus musculus cDNA clone 
(gb|CF948898.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, UI-M-HB0-cpa-e-24-0-UI.r1 NIH_BMAP_HB0 Mus musculus cDNA clone 
(gb|CN461027.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, UI-M-FY0-cgs-k-18-0-UI.s1 NIH_BMAP_FY0 Mus musculus cDNA clone 
(gb|CO043119.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, UI-M-HW0-crt-e-16-0-UI.r1 NIH_BMAP_HW0 Mus musculus cDNA clone 
(gb|CO428090.1|), blast E-value=6e-19, identity=96.61%

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


               
               174-232, BX514441 Beddington mouse embryonic region Mus musculus cDNA clone 
(emb|BX514441.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, B0280A03-3 NIA Mouse Embryonic Germ Cell cDNA Library (Long) Mus 
(gb|CD547209.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, UI-M-HK0-cms-a-19-0-UI.r1 NIH_BMAP_HK0 Mus musculus cDNA clone 
(gb|CF948898.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, UI-M-HB0-cpa-e-24-0-UI.r1 NIH_BMAP_HB0 Mus musculus cDNA clone 
(gb|CN461027.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, UI-M-FY0-cgs-k-18-0-UI.s1 NIH_BMAP_FY0 Mus musculus cDNA clone 
(gb|CO043119.1|), blast E-value=6e-19, identity=96.61% 
               

               
               174-232, UI-M-HW0-crt-e-16-0-UI.r1 NIH_BMAP_HW0 Mus musculus cDNA clone 
(gb|CO428090.1|), blast E-value=6e-19, identity=96.61%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-624, gnl|bosTau2|chr22 (9223513-9224144)
               

               
               1-624, gnl|Hg17|chr3 (38508992-38509622)
               

               
               1-624, gnl|Mm7|chr9 (119121706-119122322)

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


               
               1-624, gnl|bosTau2|chr22 (9223513-9224144)
               

               
               1-624, gnl|Hg17|chr3 (38508992-38509622)
               

               
               1-624, gnl|Mm7|chr9 (119121706-119122322)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               eye (0.170503)
               

               
               sug (0.127291)
               

               
               tra (0.123092)

Expressed library(ies): 3 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


               
               eye (0.170503)
               

               
               sug (0.127291)
               

               
               tra (0.123092)

	174-232, BX514441 Beddington mouse embryonic region Mus musculus cDNA clone (emb\|BX514441.1\|), blast E-value=6e-19, identity=96.61%
	174-232, B0280A03-3 NIA Mouse Embryonic Germ Cell cDNA Library (Long) Mus (gb\|CD547209.1\|), blast E-value=6e-19, identity=96.61%
	174-232, UI-M-HK0-cms-a-19-0-UI.r1 NIH_BMAP_HK0 Mus musculus cDNA clone (gb\|CF948898.1\|), blast E-value=6e-19, identity=96.61%
	174-232, UI-M-HB0-cpa-e-24-0-UI.r1 NIH_BMAP_HB0 Mus musculus cDNA clone (gb\|CN461027.1\|), blast E-value=6e-19, identity=96.61%
	174-232, UI-M-FY0-cgs-k-18-0-UI.s1 NIH_BMAP_FY0 Mus musculus cDNA clone (gb\|CO043119.1\|), blast E-value=6e-19, identity=96.61%
	174-232, UI-M-HW0-crt-e-16-0-UI.r1 NIH_BMAP_HW0 Mus musculus cDNA clone (gb\|CO428090.1\|), blast E-value=6e-19, identity=96.61%

	1-624, gnl\|bosTau2\|chr22 (9223513-9224144)
	1-624, gnl\|Hg17\|chr3 (38508992-38509622)
	1-624, gnl\|Mm7\|chr9 (119121706-119122322)