Non-Coding RNA Search

Ss1.1-Mixn-0028e18.5

Sequence:


               
               TGGGCCCCCTCCTCTTCCTCTTCCTCGCCCCCTTCGCTTCAACAGGAGGGAAAGGGGGCC
AAGGAGGGGGTCTCCCTTTGGCATCGCCTCCGTTCCCCTGAGACCAGTGCGGGGGCAGAG
CCTGTCCCCTCTGCTGTTCTCCGAGGCCACCGGGCAGGAGAGAAGAGCAAAGGGCCTTCG
CGGGGCGGCGGGGAGCTGGCACCTTCCTAGAGCCTCCAGCCCATCTCGTCCCCCGTCCCC
CTGCCGTGGGGCCCTGAGGAGACTGCAGGGACGGGGCAGAAAGGGAAACTGAGGAAACTC
CTCTAACCCCGCCAGCTCAAGAACTAGGCCTTGAGCAAGGGCAGGAAGCGTTGCTGAGCC
TGAAGACTGGAGCACGGGGGGCTGCTGGGAGCAGGGGCCAGAGAGGCAGGTTCCTCCCCT
CCCTCTCCCCTCCTGCTCGAACCCCCCCTTACTGCCCCAGGCTGGCGCGGGGCACTTTGT
ACAAATCCTTGTAAATACACCCACACCCTCCCCTCTGCAGAGATCTCTTGAGGAGCTGCC
GCTCTCACCTCTGGTTTTTAAGTTATTACACCCCCCTCCTCCTGTCAGCCTCCCTCACCT
GCAGCCTGTTGCCCAATAAACTTAGGAGAGTCCCCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TGGGCCCCCTCCTCTTCCTCTTCCTCGCCCCCTTCGCTTCAACAGGAGGGAAAGGGGGCC
AAGGAGGGGGTCTCCCTTTGGCATCGCCTCCGTTCCCCTGAGACCAGTGCGGGGGCAGAG
CCTGTCCCCTCTGCTGTTCTCCGAGGCCACCGGGCAGGAGAGAAGAGCAAAGGGCCTTCG
CGGGGCGGCGGGGAGCTGGCACCTTCCTAGAGCCTCCAGCCCATCTCGTCCCCCGTCCCC
CTGCCGTGGGGCCCTGAGGAGACTGCAGGGACGGGGCAGAAAGGGAAACTGAGGAAACTC
CTCTAACCCCGCCAGCTCAAGAACTAGGCCTTGAGCAAGGGCAGGAAGCGTTGCTGAGCC
TGAAGACTGGAGCACGGGGGGCTGCTGGGAGCAGGGGCCAGAGAGGCAGGTTCCTCCCCT
CCCTCTCCCCTCCTGCTCGAACCCCCCCTTACTGCCCCAGGCTGGCGCGGGGCACTTTGT
ACAAATCCTTGTAAATACACCCACACCCTCCCCTCTGCAGAGATCTCTTGAGGAGCTGCC
GCTCTCACCTCTGGTTTTTAAGTTATTACACCCCCCTCCTCCTGTCAGCCTCCCTCACCT
GCAGCCTGTTGCCCAATAAACTTAGGAGAGTCCCCC

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

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

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               10-122, - strand, RNAz p=0.999976
               

               
               162-576, - strand, RNAz p=0.997522

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


               
               10-122, - strand, RNAz p=0.999976
               

               
               162-576, - strand, RNAz p=0.997522

Predicted microRNA(s): 4 entry(ies)

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Predicted microRNA(s): 4 entry(ies)

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               21-75, + strand, RNAmicro p=0.99968
               

               
               388-613, - strand, RNAmicro p=0.993474
               

               
               12-68, - strand, RNAmicro p=0.981951
               

               
               376-498, + strand, RNAmicro p=0.938285

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


               
               21-75, + strand, RNAmicro p=0.99968
               

               
               388-613, - strand, RNAmicro p=0.993474
               

               
               12-68, - strand, RNAmicro p=0.981951
               

               
               376-498, + strand, RNAmicro p=0.938285

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               461-576, 1JEJ10A5.ab1 Bos taurus Jejunum #1 library Bos taurus cDNA, mRNA 
(gb|BM432482.1|), blast E-value=0, identity=97.41% 
               

               
               325-574, AGENCOURT_10454015 NIH_MGC_109 Homo sapiens cDNA clone 
(gb|BU855799.1|), blast E-value=0, identity=86.11% 
               

               
               418-576, 967363 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK776217.1|), 
blast E-value=0, identity=91.82% 
               

               
               415-576, BovGen_13464 normal cattle brain Bos taurus cDNA clone 
(gb|CO885139.1|), blast E-value=0, identity=91.98% 
               

               
               399-576, KECB24-323.b-T3 NVH bovine early embryo cDNA library KECB Bos 
(gb|DN840814.1|), blast E-value=0, identity=91.06% 
               

               
               394-576, KECB24-323.g-T7 NVH bovine early embryo cDNA library KECB Bos 
(gb|DN845761.1|), blast E-value=0, identity=90.76%

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


               
               461-576, 1JEJ10A5.ab1 Bos taurus Jejunum #1 library Bos taurus cDNA, mRNA 
(gb|BM432482.1|), blast E-value=0, identity=97.41% 
               

               
               325-574, AGENCOURT_10454015 NIH_MGC_109 Homo sapiens cDNA clone 
(gb|BU855799.1|), blast E-value=0, identity=86.11% 
               

               
               418-576, 967363 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK776217.1|), 
blast E-value=0, identity=91.82% 
               

               
               415-576, BovGen_13464 normal cattle brain Bos taurus cDNA clone 
(gb|CO885139.1|), blast E-value=0, identity=91.98% 
               

               
               399-576, KECB24-323.b-T3 NVH bovine early embryo cDNA library KECB Bos 
(gb|DN840814.1|), blast E-value=0, identity=91.06% 
               

               
               394-576, KECB24-323.g-T7 NVH bovine early embryo cDNA library KECB Bos 
(gb|DN845761.1|), blast E-value=0, identity=90.76%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               10-636, gnl|bosTau2|chr18 (38615628-38614994)
               

               
               10-636, gnl|Hg17|chr19 (50497826-50498461)
               

               
               10-636, gnl|Mm7|chr7 (17108402-17107832)

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


               
               10-636, gnl|bosTau2|chr18 (38615628-38614994)
               

               
               10-636, gnl|Hg17|chr19 (50497826-50498461)
               

               
               10-636, gnl|Mm7|chr7 (17108402-17107832)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               nep (0.183925)
               

               
               ill (0.175593)
               

               
               hyp (0.142837)
               

               
               pla (0.133672)

Expressed library(ies): 4 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


               
               nep (0.183925)
               

               
               ill (0.175593)
               

               
               hyp (0.142837)
               

               
               pla (0.133672)

	10-122, - strand, RNAz p=0.999976
	162-576, - strand, RNAz p=0.997522

	21-75, + strand, RNAmicro p=0.99968
	388-613, - strand, RNAmicro p=0.993474
	12-68, - strand, RNAmicro p=0.981951
	376-498, + strand, RNAmicro p=0.938285

	461-576, 1JEJ10A5.ab1 Bos taurus Jejunum #1 library Bos taurus cDNA, mRNA (gb\|BM432482.1\|), blast E-value=0, identity=97.41%
	325-574, AGENCOURT_10454015 NIH_MGC_109 Homo sapiens cDNA clone (gb\|BU855799.1\|), blast E-value=0, identity=86.11%
	418-576, 967363 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK776217.1\|), blast E-value=0, identity=91.82%
	415-576, BovGen_13464 normal cattle brain Bos taurus cDNA clone (gb\|CO885139.1\|), blast E-value=0, identity=91.98%
	399-576, KECB24-323.b-T3 NVH bovine early embryo cDNA library KECB Bos (gb\|DN840814.1\|), blast E-value=0, identity=91.06%
	394-576, KECB24-323.g-T7 NVH bovine early embryo cDNA library KECB Bos (gb\|DN845761.1\|), blast E-value=0, identity=90.76%

	10-636, gnl\|bosTau2\|chr18 (38615628-38614994)
	10-636, gnl\|Hg17\|chr19 (50497826-50498461)
	10-636, gnl\|Mm7\|chr7 (17108402-17107832)