Non-Coding RNA Search

Ss1.1-Pig4-TMW8024M01.5

Sequence:


               
               CAGGTACCCCTGTTCTTACTCTCAAGGGGGGAATTACATCAGGGAGCCCCTTCTCTTCCC
CCAGAGGGACCCCTTGTTCTTGGCTTACTTAATGCCGTTTCTGCTCATGTCTTGGTGCTG
TTAGCTCTCTGAAGGTGGCGTACCCCTCCCTGCTGCCACTCCCTATTCAGAGAGCCCCCA
GCCAGCAGCAGGCCCCTCTGCCTGCCCTCCCTAGCCTCGCGCCTCACTGCCTCTGAGGCA
CTGGTGCCACTGCCCTGGCTGGCAGCGCAGGCTGCAGCAGGTATGCCTCTCGGTGGCGGG
ACAGCTGCTTTTCTCTCTGGGATCACCTGTGGCAGCAGGCGGGGAGCCGGGAGGCGGCTA
AAGAGGGTGCAGGGTCAGAGCATGGACTCACCCTGGTCGTCAGACCTTGTTCCCCTTCCA
GGGAAGAAATGACCAAATTCTTATCCAGGAAAACACCTAACGCCTCCCCTGGGATGGCCT
TGAGCTCTGCTTTAGGGAGCGTCCCAGGCTCTGCCTTGGTGAGGTTGCTCCCCAGGTCTG
TCGGTCCTTCTGACCTCACGCCCCACCTCTGCCCTGACTCAGGCCGCCTCTGCCGGTGGG
TCTCCCCAGAGCTGTTCCTGCTTCTCCCCAATTGCTCCTGAGACCCGCGGTTCATCCTGT
TGTTGGTGTTGCGCCCCCGTGCGGTTCTCAGCCAGCAGCCTCTCCTTTTTCTCAGAATCT
TGGTTTTGAGAAACAGCAGGCCTTTTGTATCAGGCTCTTTGGTTTACTGGGGGCATGTTC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGGTACCCCTGTTCTTACTCTCAAGGGGGGAATTACATCAGGGAGCCCCTTCTCTTCCC
CCAGAGGGACCCCTTGTTCTTGGCTTACTTAATGCCGTTTCTGCTCATGTCTTGGTGCTG
TTAGCTCTCTGAAGGTGGCGTACCCCTCCCTGCTGCCACTCCCTATTCAGAGAGCCCCCA
GCCAGCAGCAGGCCCCTCTGCCTGCCCTCCCTAGCCTCGCGCCTCACTGCCTCTGAGGCA
CTGGTGCCACTGCCCTGGCTGGCAGCGCAGGCTGCAGCAGGTATGCCTCTCGGTGGCGGG
ACAGCTGCTTTTCTCTCTGGGATCACCTGTGGCAGCAGGCGGGGAGCCGGGAGGCGGCTA
AAGAGGGTGCAGGGTCAGAGCATGGACTCACCCTGGTCGTCAGACCTTGTTCCCCTTCCA
GGGAAGAAATGACCAAATTCTTATCCAGGAAAACACCTAACGCCTCCCCTGGGATGGCCT
TGAGCTCTGCTTTAGGGAGCGTCCCAGGCTCTGCCTTGGTGAGGTTGCTCCCCAGGTCTG
TCGGTCCTTCTGACCTCACGCCCCACCTCTGCCCTGACTCAGGCCGCCTCTGCCGGTGGG
TCTCCCCAGAGCTGTTCCTGCTTCTCCCCAATTGCTCCTGAGACCCGCGGTTCATCCTGT
TGTTGGTGTTGCGCCCCCGTGCGGTTCTCAGCCAGCAGCCTCTCCTTTTTCTCAGAATCT
TGGTTTTGAGAAACAGCAGGCCTTTTGTATCAGGCTCTTTGGTTTACTGGGGGCATGTTC

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

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

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               12-276, + strand, RNAz p=0.998515
               

               
               91-343, - strand, RNAz p=0.99573

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


               
               12-276, + strand, RNAz p=0.998515
               

               
               91-343, - strand, RNAz p=0.99573

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               97-243, - strand, RNAmicro p=0.998009
               

               
               112-205, + strand, RNAmicro p=0.982303

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


               
               97-243, - strand, RNAmicro p=0.998009
               

               
               112-205, + strand, RNAmicro p=0.982303

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               98-259, CJ469826 macaque brain cDNA library QnpA Macaca fascicularis cDNA 
(dbj|CJ469826.1|), blast E-value=2e-26, identity=85.54% 
               

               
               159-259, AGENCOURT_8797439 NIH_MGC_101 Homo sapiens cDNA clone IMAGE 
(gb|BQ939850.1|), blast E-value=3e-19, identity=88.35% 
               

               
               159-259, AGENCOURT_7952213 NIH_MGC_67 Homo sapiens cDNA clone IMAGE 
(gb|BU178673.1|), blast E-value=3e-19, identity=88.35% 
               

               
               159-259, AGENCOURT_7860674 NIH_MGC_67 Homo sapiens cDNA clone IMAGE 
(gb|BU192993.1|), blast E-value=3e-19, identity=88.35% 
               

               
               159-259, 17000600183007 GRN_PRENEU Homo sapiens cDNA 5', mRNA sequence 
(gb|CN333733.1|), blast E-value=3e-19, identity=88.35% 
               

               
               12-138, LB0291.CR_H12 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV916287.1|), 
blast E-value=5e-21, identity=86.61%

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


               
               98-259, CJ469826 macaque brain cDNA library QnpA Macaca fascicularis cDNA 
(dbj|CJ469826.1|), blast E-value=2e-26, identity=85.54% 
               

               
               159-259, AGENCOURT_8797439 NIH_MGC_101 Homo sapiens cDNA clone IMAGE 
(gb|BQ939850.1|), blast E-value=3e-19, identity=88.35% 
               

               
               159-259, AGENCOURT_7952213 NIH_MGC_67 Homo sapiens cDNA clone IMAGE 
(gb|BU178673.1|), blast E-value=3e-19, identity=88.35% 
               

               
               159-259, AGENCOURT_7860674 NIH_MGC_67 Homo sapiens cDNA clone IMAGE 
(gb|BU192993.1|), blast E-value=3e-19, identity=88.35% 
               

               
               159-259, 17000600183007 GRN_PRENEU Homo sapiens cDNA 5', mRNA sequence 
(gb|CN333733.1|), blast E-value=3e-19, identity=88.35% 
               

               
               12-138, LB0291.CR_H12 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV916287.1|), 
blast E-value=5e-21, identity=86.61%

Aligned organism(s): 12 entry(ies)

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Aligned organism(s): 12 entry(ies)

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               12-628, gnl|bosTau2|chr29 (30668149-30668776)
               

               
               12-628, gnl|canFam2|chr18 (56087984-56087340)
               

               
               12-628, gnl|dasNov1|scaffold_3352 (87165-86478)
               

               
               12-628, gnl|Hg17|chr11 (63479410-63480079)
               

               
               12-628, gnl|hg17|chr6 (4137296-4137977)
               

               
               12-628, gnl|mm7|chr19 (7047024-7046409)
               

               
               12-628, gnl|Mm7|chr19 (7047024-7046425)
               

               
               12-628, gnl|monDom2|scaffold_150 (1975073-1975679)
               

               
               12-628, gnl|oryCun1|scaffold_151316 (13764-14313)
               

               
               12-628, gnl|panTro1|chr5 (4346685-4347366)
               

               
               12-628, gnl|rheMac2|chr4 (4065084-4065753)
               

               
               12-628, gnl|rn3|chr1 (210057003-210056403)

Aligned organism(s): 12 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


               
               12-628, gnl|bosTau2|chr29 (30668149-30668776)
               

               
               12-628, gnl|canFam2|chr18 (56087984-56087340)
               

               
               12-628, gnl|dasNov1|scaffold_3352 (87165-86478)
               

               
               12-628, gnl|Hg17|chr11 (63479410-63480079)
               

               
               12-628, gnl|hg17|chr6 (4137296-4137977)
               

               
               12-628, gnl|mm7|chr19 (7047024-7046409)
               

               
               12-628, gnl|Mm7|chr19 (7047024-7046425)
               

               
               12-628, gnl|monDom2|scaffold_150 (1975073-1975679)
               

               
               12-628, gnl|oryCun1|scaffold_151316 (13764-14313)
               

               
               12-628, gnl|panTro1|chr5 (4346685-4347366)
               

               
               12-628, gnl|rheMac2|chr4 (4065084-4065753)
               

               
               12-628, gnl|rn3|chr1 (210057003-210056403)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               nco (0.161734)

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


               
               nco (0.161734)

	12-276, + strand, RNAz p=0.998515
	91-343, - strand, RNAz p=0.99573

	97-243, - strand, RNAmicro p=0.998009
	112-205, + strand, RNAmicro p=0.982303

	98-259, CJ469826 macaque brain cDNA library QnpA Macaca fascicularis cDNA (dbj\|CJ469826.1\|), blast E-value=2e-26, identity=85.54%
	159-259, AGENCOURT_8797439 NIH_MGC_101 Homo sapiens cDNA clone IMAGE (gb\|BQ939850.1\|), blast E-value=3e-19, identity=88.35%
	159-259, AGENCOURT_7952213 NIH_MGC_67 Homo sapiens cDNA clone IMAGE (gb\|BU178673.1\|), blast E-value=3e-19, identity=88.35%
	159-259, AGENCOURT_7860674 NIH_MGC_67 Homo sapiens cDNA clone IMAGE (gb\|BU192993.1\|), blast E-value=3e-19, identity=88.35%
	159-259, 17000600183007 GRN_PRENEU Homo sapiens cDNA 5', mRNA sequence (gb\|CN333733.1\|), blast E-value=3e-19, identity=88.35%
	12-138, LB0291.CR_H12 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV916287.1\|), blast E-value=5e-21, identity=86.61%

	12-628, gnl\|bosTau2\|chr29 (30668149-30668776)
	12-628, gnl\|canFam2\|chr18 (56087984-56087340)
	12-628, gnl\|dasNov1\|scaffold_3352 (87165-86478)
	12-628, gnl\|Hg17\|chr11 (63479410-63480079)
	12-628, gnl\|hg17\|chr6 (4137296-4137977)
	12-628, gnl\|mm7\|chr19 (7047024-7046409)
	12-628, gnl\|Mm7\|chr19 (7047024-7046425)
	12-628, gnl\|monDom2\|scaffold_150 (1975073-1975679)
	12-628, gnl\|oryCun1\|scaffold_151316 (13764-14313)
	12-628, gnl\|panTro1\|chr5 (4346685-4347366)
	12-628, gnl\|rheMac2\|chr4 (4065084-4065753)
	12-628, gnl\|rn3\|chr1 (210057003-210056403)