Non-Coding RNA Search

Ss1.1-Mixc-0043,g08.5

Sequence:


               
               GGAGACGGCCTGGCTCTAGCAGGCAGCTCTGCTGTCTGCCCTTTGTCACACCTTCCAATT
CCAGACAGAGGGGTTGCTGCAGCGCCCACCGTCATGTGTGCGTCCACGCCTGGGGGACTC
AGAATAGACATGGGGAGGGCACACCCTTTCTGGTAAGAGCATGAGCTAGAGGTGGCACAG
TCACTTCTGATGGCATCTCACTGGCCAGGACTTAGTCACATGGCTGCTAGTAGCTGCAAG
GGAAGCTGGGAAGAGTAGTTTTCGGCTGGGCTGCCCCGTTCATTTCTTAAAGGAAGGAGG
AGGGGATGGGTGTTAAAAAAAGGGGGACCTTATGGGGGTGGTTATTAAGAGCATGGCTGG
CGCAGGGTTATAACAGAGGGTAGAGGGGAAGAAAACCGCCGCCTCACTGGCCACCCAGGG
CCCGGGTGTGGTGAGAGCCTGCAGTTGTGGGCAGGATGAACACCCCCTCCCCCAAGCCCC
CTCAGGCGTTTACCCAGTAATGCCAGGACGCAGAGCCTACCTGTGGAATGGTGCCCGTTT
GTGCGCGTGTGTGTGTATTTATGGGCATGGGTGCATGCTTGGTGTGTACTTGTACGTGTC
TACGTCGGTGTGTCCCTGTACATAGATGCTTGTGTGTGGAGGTGAGAGCAGGGCCCAGGC
CGCCCCTTTCCGGGGACCTGGAGCCTGTGGCCACACCTCCTGCAACTCCCCAAAACGACT
GAGGCTGACAGCCACTTGGGGAGCCTGGAAAGCAAGGCGAAAGGGGACGTGGGGGCCATC
TGTCTGTCTGTCTTTCAGTCCACGGAATAAGAAGCCGCCTGGCCTGAGGGCTGTACAGCT
GCAAGCCCGCTACCTCTCTGCCCCCTTCTCCAGGCTGGCCGGGGGGCCCTGGCCTCCGGT
CCACTGGCTCAGGGGCAGGAGAAGGAACTGGGGAGGAGCTTAGAGCCACCTGGCCCCACC
TCCCCTCTCAGACCCCAGAGGGCCAGGCACGTTCATGGTCACCGCCAAGTGGAGGCCTGG
CCACGGAGCGGAGGGGACAGCTGGCAGAAGGGTGGG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGAGACGGCCTGGCTCTAGCAGGCAGCTCTGCTGTCTGCCCTTTGTCACACCTTCCAATT
CCAGACAGAGGGGTTGCTGCAGCGCCCACCGTCATGTGTGCGTCCACGCCTGGGGGACTC
AGAATAGACATGGGGAGGGCACACCCTTTCTGGTAAGAGCATGAGCTAGAGGTGGCACAG
TCACTTCTGATGGCATCTCACTGGCCAGGACTTAGTCACATGGCTGCTAGTAGCTGCAAG
GGAAGCTGGGAAGAGTAGTTTTCGGCTGGGCTGCCCCGTTCATTTCTTAAAGGAAGGAGG
AGGGGATGGGTGTTAAAAAAAGGGGGACCTTATGGGGGTGGTTATTAAGAGCATGGCTGG
CGCAGGGTTATAACAGAGGGTAGAGGGGAAGAAAACCGCCGCCTCACTGGCCACCCAGGG
CCCGGGTGTGGTGAGAGCCTGCAGTTGTGGGCAGGATGAACACCCCCTCCCCCAAGCCCC
CTCAGGCGTTTACCCAGTAATGCCAGGACGCAGAGCCTACCTGTGGAATGGTGCCCGTTT
GTGCGCGTGTGTGTGTATTTATGGGCATGGGTGCATGCTTGGTGTGTACTTGTACGTGTC
TACGTCGGTGTGTCCCTGTACATAGATGCTTGTGTGTGGAGGTGAGAGCAGGGCCCAGGC
CGCCCCTTTCCGGGGACCTGGAGCCTGTGGCCACACCTCCTGCAACTCCCCAAAACGACT
GAGGCTGACAGCCACTTGGGGAGCCTGGAAAGCAAGGCGAAAGGGGACGTGGGGGCCATC
TGTCTGTCTGTCTTTCAGTCCACGGAATAAGAAGCCGCCTGGCCTGAGGGCTGTACAGCT
GCAAGCCCGCTACCTCTCTGCCCCCTTCTCCAGGCTGGCCGGGGGGCCCTGGCCTCCGGT
CCACTGGCTCAGGGGCAGGAGAAGGAACTGGGGAGGAGCTTAGAGCCACCTGGCCCCACC
TCCCCTCTCAGACCCCAGAGGGCCAGGCACGTTCATGGTCACCGCCAAGTGGAGGCCTGG
CCACGGAGCGGAGGGGACAGCTGGCAGAAGGGTGGG

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               15-128, - strand, RNAz p=0.61162
               

               
               399-514, - strand, RNAz p=0.940391
               

               
               555-747, + strand, RNAz p=0.999943

Predicted RNA structure(s): 3 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


               
               15-128, - strand, RNAz p=0.61162
               

               
               399-514, - strand, RNAz p=0.940391
               

               
               555-747, + strand, RNAz p=0.999943

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               627-826, - strand, RNAmicro p=0.999935
               

               
               643-721, + strand, RNAmicro p=0.999799

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


               
               627-826, - strand, RNAmicro p=0.999935
               

               
               643-721, + strand, RNAmicro p=0.999799

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               555-747, 101640 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW653030.1|), 
blast E-value=0, identity=98.45% 
               

               
               555-747, 101650 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW653038.1|), 
blast E-value=0, identity=99.48% 
               

               
               555-725, 486017 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI976856.1|), 
blast E-value=7e-29, identity=87.21% 
               

               
               555-724, 532417 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BM480800.1|), 
blast E-value=2e-23, identity=85.96% 
               

               
               555-725, LB02615.CR_E05 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV880743.1|), 
blast E-value=7e-29, identity=87.21% 
               

               
               555-725, LB0281.CR_I21 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV907048.1|), 
blast E-value=7e-29, identity=87.21%

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


               
               555-747, 101640 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW653030.1|), 
blast E-value=0, identity=98.45% 
               

               
               555-747, 101650 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW653038.1|), 
blast E-value=0, identity=99.48% 
               

               
               555-725, 486017 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI976856.1|), 
blast E-value=7e-29, identity=87.21% 
               

               
               555-724, 532417 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BM480800.1|), 
blast E-value=2e-23, identity=85.96% 
               

               
               555-725, LB02615.CR_E05 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV880743.1|), 
blast E-value=7e-29, identity=87.21% 
               

               
               555-725, LB0281.CR_I21 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV907048.1|), 
blast E-value=7e-29, identity=87.21%

Aligned organism(s): 24 entry(ies)

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Aligned organism(s): 24 entry(ies)

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               15-224, gnl|bosTau2|chr5 (69927208-69927398)
               

               
               15-224, gnl|canFam2|chr10 (28633815-28633603)
               

               
               15-224, gnl|dasNov1|scaffold_193344 (327-115)
               

               
               15-224, gnl|echTel1|scaffold_115374 (459-251)
               

               
               15-224, gnl|hg17|chr22 (38210568-38210777)
               

               
               15-224, gnl|Hg17|chr22 (38210640-38210855)
               

               
               15-224, gnl|mm7|chr15 (80298155-80298332)
               

               
               15-224, gnl|oryCun1|scaffold_64372 (2059-1851)
               

               
               15-224, gnl|panTro1|chr23 (38459045-38459254)
               

               
               15-224, gnl|rheMac2|chr10 (83410901-83411111)
               

               
               15-224, gnl|rn3|chr7 (118491393-118491567)
               


               
               399-862, gnl|bosTau2|chr5 (69927599-69928054)
               

               
               399-862, gnl|Hg17|chr22 (38211067-38211559)
               

               
               399-862, gnl|Mm7|chr15 (80298542-80299001)
               


               
               868-1053, gnl|bosTau2|chr5 (69928474-69928656)
               

               
               868-1053, gnl|canFam2|chr10 (28632368-28632178)
               

               
               868-1053, gnl|hg17|chr22 (38211960-38212140)
               

               
               868-1053, gnl|Hg17|chr22 (38212016-38212169)
               

               
               868-1053, gnl|mm7|chr15 (80299301-80299497)
               

               
               868-1053, gnl|Mm7|chr15 (80299360-80299517)
               

               
               868-1053, gnl|oryCun1|scaffold_64372 (673-497)
               

               
               868-1053, gnl|panTro1|chr16_random (24754189-24754009)
               

               
               868-1053, gnl|rheMac2|chr10 (83412290-83412470)
               

               
               868-1053, gnl|rn3|chr7 (118492554-118492767)

Aligned organism(s): 24 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


               
               15-224, gnl|bosTau2|chr5 (69927208-69927398)
               

               
               15-224, gnl|canFam2|chr10 (28633815-28633603)
               

               
               15-224, gnl|dasNov1|scaffold_193344 (327-115)
               

               
               15-224, gnl|echTel1|scaffold_115374 (459-251)
               

               
               15-224, gnl|hg17|chr22 (38210568-38210777)
               

               
               15-224, gnl|Hg17|chr22 (38210640-38210855)
               

               
               15-224, gnl|mm7|chr15 (80298155-80298332)
               

               
               15-224, gnl|oryCun1|scaffold_64372 (2059-1851)
               

               
               15-224, gnl|panTro1|chr23 (38459045-38459254)
               

               
               15-224, gnl|rheMac2|chr10 (83410901-83411111)
               

               
               15-224, gnl|rn3|chr7 (118491393-118491567)
               


               
               399-862, gnl|bosTau2|chr5 (69927599-69928054)
               

               
               399-862, gnl|Hg17|chr22 (38211067-38211559)
               

               
               399-862, gnl|Mm7|chr15 (80298542-80299001)
               


               
               868-1053, gnl|bosTau2|chr5 (69928474-69928656)
               

               
               868-1053, gnl|canFam2|chr10 (28632368-28632178)
               

               
               868-1053, gnl|hg17|chr22 (38211960-38212140)
               

               
               868-1053, gnl|Hg17|chr22 (38212016-38212169)
               

               
               868-1053, gnl|mm7|chr15 (80299301-80299497)
               

               
               868-1053, gnl|Mm7|chr15 (80299360-80299517)
               

               
               868-1053, gnl|oryCun1|scaffold_64372 (673-497)
               

               
               868-1053, gnl|panTro1|chr16_random (24754189-24754009)
               

               
               868-1053, gnl|rheMac2|chr10 (83412290-83412470)
               

               
               868-1053, gnl|rn3|chr7 (118492554-118492767)

Expressed library(ies): 1 entry(ies)

More info

Expressed library(ies): 1 entry(ies)

Help | Less info


               
               ece (0.229305)

Expressed library(ies): 1 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


               
               ece (0.229305)

	15-128, - strand, RNAz p=0.61162
	399-514, - strand, RNAz p=0.940391
	555-747, + strand, RNAz p=0.999943

	627-826, - strand, RNAmicro p=0.999935
	643-721, + strand, RNAmicro p=0.999799

	555-747, 101640 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW653030.1\|), blast E-value=0, identity=98.45%
	555-747, 101650 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW653038.1\|), blast E-value=0, identity=99.48%
	555-725, 486017 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI976856.1\|), blast E-value=7e-29, identity=87.21%
	555-724, 532417 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BM480800.1\|), blast E-value=2e-23, identity=85.96%
	555-725, LB02615.CR_E05 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV880743.1\|), blast E-value=7e-29, identity=87.21%
	555-725, LB0281.CR_I21 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb\|DV907048.1\|), blast E-value=7e-29, identity=87.21%

	15-224, gnl\|bosTau2\|chr5 (69927208-69927398)
	15-224, gnl\|canFam2\|chr10 (28633815-28633603)
	15-224, gnl\|dasNov1\|scaffold_193344 (327-115)
	15-224, gnl\|echTel1\|scaffold_115374 (459-251)
	15-224, gnl\|hg17\|chr22 (38210568-38210777)
	15-224, gnl\|Hg17\|chr22 (38210640-38210855)
	15-224, gnl\|mm7\|chr15 (80298155-80298332)
	15-224, gnl\|oryCun1\|scaffold_64372 (2059-1851)
	15-224, gnl\|panTro1\|chr23 (38459045-38459254)
	15-224, gnl\|rheMac2\|chr10 (83410901-83411111)
	15-224, gnl\|rn3\|chr7 (118491393-118491567)

	399-862, gnl\|bosTau2\|chr5 (69927599-69928054)
	399-862, gnl\|Hg17\|chr22 (38211067-38211559)
	399-862, gnl\|Mm7\|chr15 (80298542-80299001)

	868-1053, gnl\|bosTau2\|chr5 (69928474-69928656)
	868-1053, gnl\|canFam2\|chr10 (28632368-28632178)
	868-1053, gnl\|hg17\|chr22 (38211960-38212140)
	868-1053, gnl\|Hg17\|chr22 (38212016-38212169)
	868-1053, gnl\|mm7\|chr15 (80299301-80299497)
	868-1053, gnl\|Mm7\|chr15 (80299360-80299517)
	868-1053, gnl\|oryCun1\|scaffold_64372 (673-497)
	868-1053, gnl\|panTro1\|chr16_random (24754189-24754009)
	868-1053, gnl\|rheMac2\|chr10 (83412290-83412470)
	868-1053, gnl\|rn3\|chr7 (118492554-118492767)