Non-Coding RNA Search

Ss1.1-rnca07b_g23.5

Sequence:


               
               CAGGCCCTAAGGGTGAGATAGGGCTGGCTGGGCCTGCAGGATTCCCTGGGGCTAAGGGAG
AAAGGGGCCCCTCCGGGTTAGATGGAAAACCAGGTACCCAGGAGAACCAGGTCTCAATGG
TCCCAAGGGTAACCCAGGGTTACCCGGCCCAAAAGGTGACCCTGGAATTGGAGGACCTCC
TGGTCTCCCAGGCCCTGTGGGCCCAGCAGGAGCTAAGGGAGTGCCTGGACACAATGGTGA
GGCTGGGCCAAGAGGTGCCCCTGGAATACCAGGTACCAGAGGTCCCATCGGGCCACCAGG
CATTCCAGGATTCCCTGGCTCTAAAGGGGATCCAGGAAATCCAGGTCCTCCTGGTCCAGC
TGGCATAGCAACTAAGGGCCTCAATGGGCCCACTGGGCCACCAGGGCCTCCAGGACCAAA
AGGTCATGCTGGAGAGCCTGGCCTCCCAGGGCCCCCAGGGCCCCCAGGCCCTCCAGGCCA
AGCGGTCCCACCCGAAGGCTTTGTAAAGGAAGGACAGAGGGCTTTTGTTAGTGCCAACCA
GGGAGTAACAGGAATGCCTGTATCTGCCTTCACTGTGATTCTCTCCAAAGCTTACCCAGC
TATAGGTGCTCCCATCCCCTTTGATAAGATTTTATATAACGGGCAACAGCACTATGACCC
AAAAACTGGAATCTTTACCTGCAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGGCCCTAAGGGTGAGATAGGGCTGGCTGGGCCTGCAGGATTCCCTGGGGCTAAGGGAG
AAAGGGGCCCCTCCGGGTTAGATGGAAAACCAGGTACCCAGGAGAACCAGGTCTCAATGG
TCCCAAGGGTAACCCAGGGTTACCCGGCCCAAAAGGTGACCCTGGAATTGGAGGACCTCC
TGGTCTCCCAGGCCCTGTGGGCCCAGCAGGAGCTAAGGGAGTGCCTGGACACAATGGTGA
GGCTGGGCCAAGAGGTGCCCCTGGAATACCAGGTACCAGAGGTCCCATCGGGCCACCAGG
CATTCCAGGATTCCCTGGCTCTAAAGGGGATCCAGGAAATCCAGGTCCTCCTGGTCCAGC
TGGCATAGCAACTAAGGGCCTCAATGGGCCCACTGGGCCACCAGGGCCTCCAGGACCAAA
AGGTCATGCTGGAGAGCCTGGCCTCCCAGGGCCCCCAGGGCCCCCAGGCCCTCCAGGCCA
AGCGGTCCCACCCGAAGGCTTTGTAAAGGAAGGACAGAGGGCTTTTGTTAGTGCCAACCA
GGGAGTAACAGGAATGCCTGTATCTGCCTTCACTGTGATTCTCTCCAAAGCTTACCCAGC
TATAGGTGCTCCCATCCCCTTTGATAAGATTTTATATAACGGGCAACAGCACTATGACCC
AAAAACTGGAATCTTTACCTGCAG

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

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

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               1-578, + strand, RNAz p=0.998658

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


               
               1-578, + strand, RNAz p=0.998658

Predicted microRNA(s): 4 entry(ies)

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Predicted microRNA(s): 4 entry(ies)

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               260-364, - strand, RNAmicro p=0.999654
               

               
               379-466, + strand, RNAmicro p=0.999331
               

               
               393-483, - strand, RNAmicro p=0.998972
               

               
               248-324, + strand, RNAmicro p=0.996287

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


               
               260-364, - strand, RNAmicro p=0.999654
               

               
               379-466, + strand, RNAmicro p=0.999331
               

               
               393-483, - strand, RNAmicro p=0.998972
               

               
               248-324, + strand, RNAmicro p=0.996287

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               187-576, AV593019 Bos taurus cartilage fetus Bos taurus cDNA clone 
(dbj|AV593019.1|), blast E-value=0, identity=87.18% 
               

               
               93-483, UI-E-EO1-aiv-c-23-0-UI.r1 UI-E-EO1 Homo sapiens cDNA clone 
(gb|BM728321.1|), blast E-value=0, identity=91.56% 
               

               
               29-483, AGENCOURT_10166060 NCI_CGAP_Mam2 Mus musculus cDNA clone 
(gb|BU517722.1|), blast E-value=0, identity=84.43% 
               

               
               93-483, 56053612H1 FLP Homo sapiens cDNA, mRNA sequence (gb|CD608625.1|), blast 
E-value=0, identity=90.79% 
               

               
               91-483, 56053612J1 FLP Homo sapiens cDNA, mRNA sequence (gb|CD608626.1|), blast 
E-value=0, identity=91.35% 
               

               
               296-576, sh1-bd01_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, 
(gb|DY482310.1|), blast E-value=0, identity=88.61%

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


               
               187-576, AV593019 Bos taurus cartilage fetus Bos taurus cDNA clone 
(dbj|AV593019.1|), blast E-value=0, identity=87.18% 
               

               
               93-483, UI-E-EO1-aiv-c-23-0-UI.r1 UI-E-EO1 Homo sapiens cDNA clone 
(gb|BM728321.1|), blast E-value=0, identity=91.56% 
               

               
               29-483, AGENCOURT_10166060 NCI_CGAP_Mam2 Mus musculus cDNA clone 
(gb|BU517722.1|), blast E-value=0, identity=84.43% 
               

               
               93-483, 56053612H1 FLP Homo sapiens cDNA, mRNA sequence (gb|CD608625.1|), blast 
E-value=0, identity=90.79% 
               

               
               91-483, 56053612J1 FLP Homo sapiens cDNA, mRNA sequence (gb|CD608626.1|), blast 
E-value=0, identity=91.35% 
               

               
               296-576, sh1-bd01_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, 
(gb|DY482310.1|), blast E-value=0, identity=88.61%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-681, gnl|bosTau2|chr9 (18617175-18617858)
               

               
               1-681, gnl|Hg17|chr6 (116548899-116548200)
               

               
               1-681, gnl|Mm7|chr10 (34175750-34176449)

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


               
               1-681, gnl|bosTau2|chr9 (18617175-18617858)
               

               
               1-681, gnl|Hg17|chr6 (116548899-116548200)
               

               
               1-681, gnl|Mm7|chr10 (34175750-34176449)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               nca (0.547495)

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


               
               nca (0.547495)

	260-364, - strand, RNAmicro p=0.999654
	379-466, + strand, RNAmicro p=0.999331
	393-483, - strand, RNAmicro p=0.998972
	248-324, + strand, RNAmicro p=0.996287

	187-576, AV593019 Bos taurus cartilage fetus Bos taurus cDNA clone (dbj\|AV593019.1\|), blast E-value=0, identity=87.18%
	93-483, UI-E-EO1-aiv-c-23-0-UI.r1 UI-E-EO1 Homo sapiens cDNA clone (gb\|BM728321.1\|), blast E-value=0, identity=91.56%
	29-483, AGENCOURT_10166060 NCI_CGAP_Mam2 Mus musculus cDNA clone (gb\|BU517722.1\|), blast E-value=0, identity=84.43%
	93-483, 56053612H1 FLP Homo sapiens cDNA, mRNA sequence (gb\|CD608625.1\|), blast E-value=0, identity=90.79%
	91-483, 56053612J1 FLP Homo sapiens cDNA, mRNA sequence (gb\|CD608626.1\|), blast E-value=0, identity=91.35%
	296-576, sh1-bd01_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, (gb\|DY482310.1\|), blast E-value=0, identity=88.61%

	1-681, gnl\|bosTau2\|chr9 (18617175-18617858)
	1-681, gnl\|Hg17\|chr6 (116548899-116548200)
	1-681, gnl\|Mm7\|chr10 (34175750-34176449)