Non-Coding RNA Search

Ss1.1-rthg28_i22.5

Sequence:


               
               GATGAAACAACCCGCAGCTTCTCATTTGACAGTAACTCGATGCAATTCACTTTGTGGAAC
CAAGCCACAAAGTGAAAAGCATCGAATTGCAGAGAACAGTGTTATCACATCCCTACCCAA
CATTGGGCCCTCCTTGCACTTGTGGGAAGGTAGCCCAAGGTACAACTATTTAGCTTCCCG
TTTTGCTTCAAGGCTCTATAGCTCTAGATTTTGGTGGTAGCAAATTAATTGGGTGGAGGG
ATTGAGCAGAGAGAGGCAGATCCTCAGGTTCAACACAAGAACTGGATTGAAAAAGGTCAT
TGTAGGCTGATGTGAGCATCTTGGATACATAGCCAACTGCCCTAAAATAATGGTTTCTTG
CTATTTCTCTGGGTTGTTTGTCAGATAGCCTTTAATTTTAATCATTTTCCCCTCCCTGTG
CTACCTTGGCCCCATTTGGATTCTTGTGTTTAACCTAATGCTCAGCCTTGGTATTCCATT
TCCCTTCTTCCCCTTTTTGCTACTATTAAAAGTTGGAGAAGTGGAATTCACACCTTGAAA
TTTCCAGGAGGCTATAGTTGTATCTTGTCAAAATGACGCAGTAATAATGCCAAGTGTCAA
AACAGCCCCATTAAAATGCCGCCTTTTTAAATAATGTGCTGCTAAATATAGTGCACATGA
AAACAGCAAGACTGTATATATATGTAAATATATATATATATATATCTGTATCTTTGTATG
TATCTCTGTATCTGTACCTTTGCTGTATCTTTTAATAAACAGTTTACTTTTATTTAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GATGAAACAACCCGCAGCTTCTCATTTGACAGTAACTCGATGCAATTCACTTTGTGGAAC
CAAGCCACAAAGTGAAAAGCATCGAATTGCAGAGAACAGTGTTATCACATCCCTACCCAA
CATTGGGCCCTCCTTGCACTTGTGGGAAGGTAGCCCAAGGTACAACTATTTAGCTTCCCG
TTTTGCTTCAAGGCTCTATAGCTCTAGATTTTGGTGGTAGCAAATTAATTGGGTGGAGGG
ATTGAGCAGAGAGAGGCAGATCCTCAGGTTCAACACAAGAACTGGATTGAAAAAGGTCAT
TGTAGGCTGATGTGAGCATCTTGGATACATAGCCAACTGCCCTAAAATAATGGTTTCTTG
CTATTTCTCTGGGTTGTTTGTCAGATAGCCTTTAATTTTAATCATTTTCCCCTCCCTGTG
CTACCTTGGCCCCATTTGGATTCTTGTGTTTAACCTAATGCTCAGCCTTGGTATTCCATT
TCCCTTCTTCCCCTTTTTGCTACTATTAAAAGTTGGAGAAGTGGAATTCACACCTTGAAA
TTTCCAGGAGGCTATAGTTGTATCTTGTCAAAATGACGCAGTAATAATGCCAAGTGTCAA
AACAGCCCCATTAAAATGCCGCCTTTTTAAATAATGTGCTGCTAAATATAGTGCACATGA
AAACAGCAAGACTGTATATATATGTAAATATATATATATATATATCTGTATCTTTGTATG
TATCTCTGTATCTGTACCTTTGCTGTATCTTTTAATAAACAGTTTACTTTTATTTAAAAA
AAAAAAAAAAAA

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

More info

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

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               1-131, - strand, RNAz p=0.999973
               

               
               590-746, - strand, RNAz p=0.995356

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


               
               1-131, - strand, RNAz p=0.999973
               

               
               590-746, - strand, RNAz p=0.995356

Predicted microRNA(s): 5 entry(ies)

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Predicted microRNA(s): 5 entry(ies)

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               86-199, - strand, RNAmicro p=1
               

               
               121-209, + strand, RNAmicro p=0.999998
               

               
               6-100, - strand, RNAmicro p=0.999981
               

               
               1-111, + strand, RNAmicro p=0.999964
               

               
               660-773, + strand, RNAmicro p=0.993061

Predicted microRNA(s): 5 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


               
               86-199, - strand, RNAmicro p=1
               

               
               121-209, + strand, RNAmicro p=0.999998
               

               
               6-100, - strand, RNAmicro p=0.999981
               

               
               1-111, + strand, RNAmicro p=0.999964
               

               
               660-773, + strand, RNAmicro p=0.993061

Similar Transcript(s): 12 entry(ies)

More info

Similar Transcript(s): 12 entry(ies)

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               1-131, BP250021A20A9 Soares normalized bovine placenta Bos taurus cDNA 
(gb|BF046366.1|), blast E-value=0, identity=100% 
               

               
               1-131, AGENCOURT_7802245 NIH_MGC_92 Homo sapiens cDNA clone IMAGE 
(gb|BQ433772.1|), blast E-value=0, identity=100% 
               

               
               1-131, 702350 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB448276.1|), 
blast E-value=0, identity=100% 
               

               
               1-131, 4090111 BARC 10BOV Bos taurus cDNA clone 10BOV27_D06 5', mRNA 
(gb|CK951140.1|), blast E-value=0, identity=100% 
               

               
               1-131, 1259516 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN518765.1|), 
blast E-value=0, identity=100% 
               

               
               1-131, 1264392 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN521511.1|), 
blast E-value=0, identity=100% 
               

               
               590-746, 969672 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK847085.1|), 
blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, 4089727 BARC 10BOV Bos taurus cDNA clone 10BOV27_D06 3', mRNA 
(gb|CK950813.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, 4079712 BARC 9BOV Bos taurus cDNA clone 9BOV18_C01 3', mRNA 
(gb|CK964892.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, BovGen_15888 normal cattle brain Bos taurus cDNA clone 
(gb|CO887563.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, 1259516 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN518765.1|), 
blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, 1264392 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN521511.1|), 
blast E-value=0.0000000000007, identity=100%

Similar Transcript(s): 12 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


               
               1-131, BP250021A20A9 Soares normalized bovine placenta Bos taurus cDNA 
(gb|BF046366.1|), blast E-value=0, identity=100% 
               

               
               1-131, AGENCOURT_7802245 NIH_MGC_92 Homo sapiens cDNA clone IMAGE 
(gb|BQ433772.1|), blast E-value=0, identity=100% 
               

               
               1-131, 702350 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB448276.1|), 
blast E-value=0, identity=100% 
               

               
               1-131, 4090111 BARC 10BOV Bos taurus cDNA clone 10BOV27_D06 5', mRNA 
(gb|CK951140.1|), blast E-value=0, identity=100% 
               

               
               1-131, 1259516 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN518765.1|), 
blast E-value=0, identity=100% 
               

               
               1-131, 1264392 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN521511.1|), 
blast E-value=0, identity=100% 
               

               
               590-746, 969672 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK847085.1|), 
blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, 4089727 BARC 10BOV Bos taurus cDNA clone 10BOV27_D06 3', mRNA 
(gb|CK950813.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, 4079712 BARC 9BOV Bos taurus cDNA clone 9BOV18_C01 3', mRNA 
(gb|CK964892.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, BovGen_15888 normal cattle brain Bos taurus cDNA clone 
(gb|CO887563.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, 1259516 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN518765.1|), 
blast E-value=0.0000000000007, identity=100% 
               

               
               590-746, 1264392 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN521511.1|), 
blast E-value=0.0000000000007, identity=100%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               1-777, gnl|bosTau2|chr1 (1306399-1307182)
               

               
               1-777, gnl|canFam2|chr31 (31199256-31200201)
               

               
               1-777, gnl|dasNov1|scaffold_2839 (43906-44856)
               

               
               1-777, gnl|echTel1|scaffold_183241 (981-1928)
               

               
               1-777, gnl|hg17|chr21 (33853980-33854913)
               

               
               1-777, gnl|Hg17|chr21 (33854088-33854843)
               

               
               1-777, gnl|loxAfr1|scaffold_810 (50444-49508)
               

               
               1-777, gnl|mm7|chr16 (91715193-91716117)
               

               
               1-777, gnl|Mm7|chr16 (91715301-91716054)
               

               
               1-777, gnl|monDom2|scaffold_29 (14191419-14190480)
               

               
               1-777, gnl|oryCun1|scaffold_202500 (164191-163240)
               

               
               1-777, gnl|panTro1|chr22 (33841965-33842898)
               

               
               1-777, gnl|rheMac2|chr3 (13001503-13000569)
               

               
               1-777, gnl|rn3|chr11 (31676324-31677266)

Aligned organism(s): 14 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


               
               1-777, gnl|bosTau2|chr1 (1306399-1307182)
               

               
               1-777, gnl|canFam2|chr31 (31199256-31200201)
               

               
               1-777, gnl|dasNov1|scaffold_2839 (43906-44856)
               

               
               1-777, gnl|echTel1|scaffold_183241 (981-1928)
               

               
               1-777, gnl|hg17|chr21 (33853980-33854913)
               

               
               1-777, gnl|Hg17|chr21 (33854088-33854843)
               

               
               1-777, gnl|loxAfr1|scaffold_810 (50444-49508)
               

               
               1-777, gnl|mm7|chr16 (91715193-91716117)
               

               
               1-777, gnl|Mm7|chr16 (91715301-91716054)
               

               
               1-777, gnl|monDom2|scaffold_29 (14191419-14190480)
               

               
               1-777, gnl|oryCun1|scaffold_202500 (164191-163240)
               

               
               1-777, gnl|panTro1|chr22 (33841965-33842898)
               

               
               1-777, gnl|rheMac2|chr3 (13001503-13000569)
               

               
               1-777, gnl|rn3|chr11 (31676324-31677266)

Expressed library(ies): 6 entry(ies)

More info

Expressed library(ies): 6 entry(ies)

Help | Less info


               
               fce (0.271592)
               

               
               thg (0.253582)
               

               
               nlu (0.191681)
               

               
               fty (0.17584)
               

               
               cag (0.151194)
               

               
               jca (0.11396)

Expressed library(ies): 6 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


               
               fce (0.271592)
               

               
               thg (0.253582)
               

               
               nlu (0.191681)
               

               
               fty (0.17584)
               

               
               cag (0.151194)
               

               
               jca (0.11396)

	1-131, - strand, RNAz p=0.999973
	590-746, - strand, RNAz p=0.995356

	86-199, - strand, RNAmicro p=1
	121-209, + strand, RNAmicro p=0.999998
	6-100, - strand, RNAmicro p=0.999981
	1-111, + strand, RNAmicro p=0.999964
	660-773, + strand, RNAmicro p=0.993061

	1-131, BP250021A20A9 Soares normalized bovine placenta Bos taurus cDNA (gb\|BF046366.1\|), blast E-value=0, identity=100%
	1-131, AGENCOURT_7802245 NIH_MGC_92 Homo sapiens cDNA clone IMAGE (gb\|BQ433772.1\|), blast E-value=0, identity=100%
	1-131, 702350 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB448276.1\|), blast E-value=0, identity=100%
	1-131, 4090111 BARC 10BOV Bos taurus cDNA clone 10BOV27_D06 5', mRNA (gb\|CK951140.1\|), blast E-value=0, identity=100%
	1-131, 1259516 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN518765.1\|), blast E-value=0, identity=100%
	1-131, 1264392 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN521511.1\|), blast E-value=0, identity=100%
	590-746, 969672 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK847085.1\|), blast E-value=0.0000000000007, identity=100%
	590-746, 4089727 BARC 10BOV Bos taurus cDNA clone 10BOV27_D06 3', mRNA (gb\|CK950813.1\|), blast E-value=0.0000000000007, identity=100%
	590-746, 4079712 BARC 9BOV Bos taurus cDNA clone 9BOV18_C01 3', mRNA (gb\|CK964892.1\|), blast E-value=0.0000000000007, identity=100%
	590-746, BovGen_15888 normal cattle brain Bos taurus cDNA clone (gb\|CO887563.1\|), blast E-value=0.0000000000007, identity=100%
	590-746, 1259516 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN518765.1\|), blast E-value=0.0000000000007, identity=100%
	590-746, 1264392 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN521511.1\|), blast E-value=0.0000000000007, identity=100%

	1-777, gnl\|bosTau2\|chr1 (1306399-1307182)
	1-777, gnl\|canFam2\|chr31 (31199256-31200201)
	1-777, gnl\|dasNov1\|scaffold_2839 (43906-44856)
	1-777, gnl\|echTel1\|scaffold_183241 (981-1928)
	1-777, gnl\|hg17\|chr21 (33853980-33854913)
	1-777, gnl\|Hg17\|chr21 (33854088-33854843)
	1-777, gnl\|loxAfr1\|scaffold_810 (50444-49508)
	1-777, gnl\|mm7\|chr16 (91715193-91716117)
	1-777, gnl\|Mm7\|chr16 (91715301-91716054)
	1-777, gnl\|monDom2\|scaffold_29 (14191419-14190480)
	1-777, gnl\|oryCun1\|scaffold_202500 (164191-163240)
	1-777, gnl\|panTro1\|chr22 (33841965-33842898)
	1-777, gnl\|rheMac2\|chr3 (13001503-13000569)
	1-777, gnl\|rn3\|chr11 (31676324-31677266)

	fce (0.271592)
	thg (0.253582)
	nlu (0.191681)
	fty (0.17584)
	cag (0.151194)
	jca (0.11396)