Non-Coding RNA Search

Ss1.1-rpigcf0_010887.5

Sequence:


               
               AATTCGAATTCGAATTCGATTCGAATTCCAGCAATTTTAGGAGTGTTACAAGAATGGCCC
TTCTCTATTCTAAGGGAACCCGCCAGTTCTTCCCTGATGGAAATATAATCAAGAGAAATG
ATTGGGAGAAAGTGTTTGTTGTTTTTTTTTTTTTTCCTCCTCCATAGAATTGGGATTGGA
AGGGGAGTGTGTGCATGGAGAAACATAAGGAATTATGCATTTGGATATGCATTTTAATTA
GGTGGACAGAAGCAGCCGCCTGTTAATTTTTCTTGCTTGTTTCCACTTAGCATTCATCAC
AGGCAGAACCACCATAGAGCGCTCCCACGATAATAGATGGTTCTGCATTGGCTAAGTCCT
CGGGGAAAATAATTAGCAGGAGAGAATATATTCTCTCCACTTCGACTACCCCATCCACCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AATTCGAATTCGAATTCGATTCGAATTCCAGCAATTTTAGGAGTGTTACAAGAATGGCCC
TTCTCTATTCTAAGGGAACCCGCCAGTTCTTCCCTGATGGAAATATAATCAAGAGAAATG
ATTGGGAGAAAGTGTTTGTTGTTTTTTTTTTTTTTCCTCCTCCATAGAATTGGGATTGGA
AGGGGAGTGTGTGCATGGAGAAACATAAGGAATTATGCATTTGGATATGCATTTTAATTA
GGTGGACAGAAGCAGCCGCCTGTTAATTTTTCTTGCTTGTTTCCACTTAGCATTCATCAC
AGGCAGAACCACCATAGAGCGCTCCCACGATAATAGATGGTTCTGCATTGGCTAAGTCCT
CGGGGAAAATAATTAGCAGGAGAGAATATATTCTCTCCACTTCGACTACCCCATCCACCC

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

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

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               67-420, + strand, RNAz p=0.999675

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


               
               67-420, + strand, RNAz p=0.999675

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               291-383, - strand, RNAmicro p=0.901069

Predicted microRNA(s): 1 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


               
               291-383, - strand, RNAmicro p=0.901069

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               272-401, EST226660 Normalized rat embryo, Bento Soares Rattus sp. cDNA clone 
(gb|AI229965.1|), blast E-value=0, identity=97.69% 
               

               
               255-401, UI-R-CA1-bcw-g-09-0-UI.s1 UI-R-CA1 Rattus norvegicus cDNA clone 
(gb|BF391645.1|), blast E-value=0, identity=97.96% 
               

               
               255-401, UI-R-CA0-bhm-g-01-0-UI.s1 UI-R-CA0 Rattus norvegicus cDNA clone 
(gb|BF402629.1|), blast E-value=0, identity=97.96% 
               

               
               255-401, UI-M-CG0p-bnx-f-03-0-UI.s1 NIH_BMAP_Ret4_S2 Mus musculus cDNA clone 
(gb|BF464210.1|), blast E-value=0, identity=95.92% 
               

               
               157-137, UI-E-EJ0-aig-n-16-0-UI.s1 UI-E-EJ0 Homo sapiens cDNA clone 
(gb|BM682526.1|), blast E-value=0.000000000000002, identity=91.78% 
               

               
               157-137, UI-E-EJ0-aig-n-16-0-UI.r1 UI-E-EJ0 Homo sapiens cDNA clone 
(gb|BM726092.1|), blast E-value=0.000000000000002, identity=91.78%

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


               
               272-401, EST226660 Normalized rat embryo, Bento Soares Rattus sp. cDNA clone 
(gb|AI229965.1|), blast E-value=0, identity=97.69% 
               

               
               255-401, UI-R-CA1-bcw-g-09-0-UI.s1 UI-R-CA1 Rattus norvegicus cDNA clone 
(gb|BF391645.1|), blast E-value=0, identity=97.96% 
               

               
               255-401, UI-R-CA0-bhm-g-01-0-UI.s1 UI-R-CA0 Rattus norvegicus cDNA clone 
(gb|BF402629.1|), blast E-value=0, identity=97.96% 
               

               
               255-401, UI-M-CG0p-bnx-f-03-0-UI.s1 NIH_BMAP_Ret4_S2 Mus musculus cDNA clone 
(gb|BF464210.1|), blast E-value=0, identity=95.92% 
               

               
               157-137, UI-E-EJ0-aig-n-16-0-UI.s1 UI-E-EJ0 Homo sapiens cDNA clone 
(gb|BM682526.1|), blast E-value=0.000000000000002, identity=91.78% 
               

               
               157-137, UI-E-EJ0-aig-n-16-0-UI.r1 UI-E-EJ0 Homo sapiens cDNA clone 
(gb|BM726092.1|), blast E-value=0.000000000000002, identity=91.78%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               29-420, gnl|bosTau2|chr10 (59405471-59405847)
               

               
               29-420, gnl|Hg17|chr14 (72418845-72419224)
               

               
               29-420, gnl|Mm7|chr12 (81472239-81472618)

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


               
               29-420, gnl|bosTau2|chr10 (59405471-59405847)
               

               
               29-420, gnl|Hg17|chr14 (72418845-72419224)
               

               
               29-420, gnl|Mm7|chr12 (81472239-81472618)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               ctl (0.306138)

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


               
               ctl (0.306138)

	272-401, EST226660 Normalized rat embryo, Bento Soares Rattus sp. cDNA clone (gb\|AI229965.1\|), blast E-value=0, identity=97.69%
	255-401, UI-R-CA1-bcw-g-09-0-UI.s1 UI-R-CA1 Rattus norvegicus cDNA clone (gb\|BF391645.1\|), blast E-value=0, identity=97.96%
	255-401, UI-R-CA0-bhm-g-01-0-UI.s1 UI-R-CA0 Rattus norvegicus cDNA clone (gb\|BF402629.1\|), blast E-value=0, identity=97.96%
	255-401, UI-M-CG0p-bnx-f-03-0-UI.s1 NIH_BMAP_Ret4_S2 Mus musculus cDNA clone (gb\|BF464210.1\|), blast E-value=0, identity=95.92%
	157-137, UI-E-EJ0-aig-n-16-0-UI.s1 UI-E-EJ0 Homo sapiens cDNA clone (gb\|BM682526.1\|), blast E-value=0.000000000000002, identity=91.78%
	157-137, UI-E-EJ0-aig-n-16-0-UI.r1 UI-E-EJ0 Homo sapiens cDNA clone (gb\|BM726092.1\|), blast E-value=0.000000000000002, identity=91.78%

	29-420, gnl\|bosTau2\|chr10 (59405471-59405847)
	29-420, gnl\|Hg17\|chr14 (72418845-72419224)
	29-420, gnl\|Mm7\|chr12 (81472239-81472618)