Non-Coding RNA Search

Ss1.1-Pig4-TMW8012P05.3

Sequence:


               
               GGAGCAGGCCCACGACAGCTGCAGGCAGTCTGGCCTGTATGCCAGTGAGGGCTTCTGTGC
CCACCAGCCCCATGGTCACTTCGCTTTGTGCTCTGGGCTGCTGTGCTGGGATGCCAGTAC
GAGGAGGGCGGGGTACAGTTTGAGGCCACCCCCCTCCCTTACTACCTAGGGAAGGGCCTA
TGTTCTTGTGGGCAGCAGGAAGGAGAGGCCCCTTGAAGCTGCCTGGCCAGGGGCCCTCTG
TCCTGATGGACTTCCCTACTTTTGTCCTTCCCCAGGACTAAAGGCCTGGAGGAGCAGAGC
AAGGGGCCAGCTTTTGGAATGTTGAGGTGAATGTGGGAGCAGAGATCATGAATAGCTCAG
GGCAGTGGGTGGAGCAGCAAGAGTGGGGCTGCATGTGGGAGGCTCTGGCCAGGATTGCCT
CGGCCCCTCCTCAGGCTGCACGTGTAGCTGAGGGCGGGGGGGTCTCAGCTCTGCTGTCCC
CAACCCCCGCGCTAGCCTAGCTTCCCAGGCTGTTCTCAGAGGAGGGCAGGCTTCCTGCCT
CCTTCCTCTAAGACAGCAGATCTGGGACAACCTGGGGGGGGGGGTAGGGTCACTCCCACT
TCCAGTCCCTGACAGAGACTGAGACTAAAGCATCACTTAATAAAGACCCCCCCGAAGCCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGAGCAGGCCCACGACAGCTGCAGGCAGTCTGGCCTGTATGCCAGTGAGGGCTTCTGTGC
CCACCAGCCCCATGGTCACTTCGCTTTGTGCTCTGGGCTGCTGTGCTGGGATGCCAGTAC
GAGGAGGGCGGGGTACAGTTTGAGGCCACCCCCCTCCCTTACTACCTAGGGAAGGGCCTA
TGTTCTTGTGGGCAGCAGGAAGGAGAGGCCCCTTGAAGCTGCCTGGCCAGGGGCCCTCTG
TCCTGATGGACTTCCCTACTTTTGTCCTTCCCCAGGACTAAAGGCCTGGAGGAGCAGAGC
AAGGGGCCAGCTTTTGGAATGTTGAGGTGAATGTGGGAGCAGAGATCATGAATAGCTCAG
GGCAGTGGGTGGAGCAGCAAGAGTGGGGCTGCATGTGGGAGGCTCTGGCCAGGATTGCCT
CGGCCCCTCCTCAGGCTGCACGTGTAGCTGAGGGCGGGGGGGTCTCAGCTCTGCTGTCCC
CAACCCCCGCGCTAGCCTAGCTTCCCAGGCTGTTCTCAGAGGAGGGCAGGCTTCCTGCCT
CCTTCCTCTAAGACAGCAGATCTGGGACAACCTGGGGGGGGGGGTAGGGTCACTCCCACT
TCCAGTCCCTGACAGAGACTGAGACTAAAGCATCACTTAATAAAGACCCCCCCGAAGCCC

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

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

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               1-633, + strand, RNAz p=0.999948

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


               
               1-633, + strand, RNAz p=0.999948

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               440-635, + strand, RNAmicro p=0.965855
               

               
               528-601, - strand, RNAmicro p=0.924735

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


               
               440-635, + strand, RNAmicro p=0.965855
               

               
               528-601, - strand, RNAmicro p=0.924735

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               189-100, 4065929 BARC 10BOV Bos taurus cDNA clone 10BOV12_L18 5', mRNA 
(gb|CK942271.1|), blast E-value=0.00000000000005, identity=87% 
               

               
               189-553, BovGen_02386 normal cattle brain Bos taurus cDNA clone 
(gb|CO874061.1|), blast E-value=0.00000000000005, identity=87.91% 
               

               
               195-573, POSM0605001_D21R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV896157.1|), blast E-value=0, identity=97.36% 
               

               
               189-100, 001017BEMN049846HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY070201.1|), blast E-value=0.00000000000005, identity=87% 
               

               
               189-100, LB02219.CR_M08 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE240627.1|), 
blast E-value=0.00000000000005, identity=87% 
               

               
               189-100, LB03037.CR_N24 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE376804.1|), 
blast E-value=0.00000000000005, identity=87%

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


               
               189-100, 4065929 BARC 10BOV Bos taurus cDNA clone 10BOV12_L18 5', mRNA 
(gb|CK942271.1|), blast E-value=0.00000000000005, identity=87% 
               

               
               189-553, BovGen_02386 normal cattle brain Bos taurus cDNA clone 
(gb|CO874061.1|), blast E-value=0.00000000000005, identity=87.91% 
               

               
               195-573, POSM0605001_D21R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV896157.1|), blast E-value=0, identity=97.36% 
               

               
               189-100, 001017BEMN049846HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY070201.1|), blast E-value=0.00000000000005, identity=87% 
               

               
               189-100, LB02219.CR_M08 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE240627.1|), 
blast E-value=0.00000000000005, identity=87% 
               

               
               189-100, LB03037.CR_N24 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE376804.1|), 
blast E-value=0.00000000000005, identity=87%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_015327, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_015327, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-660, gnl|bosTau2|chr3 (10392124-10392790)
               

               
               1-660, gnl|Hg17|chr1 (153032755-153032090)
               

               
               1-660, gnl|Mm7|chr3 (88475519-88476138)

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


               
               1-660, gnl|bosTau2|chr3 (10392124-10392790)
               

               
               1-660, gnl|Hg17|chr1 (153032755-153032090)
               

               
               1-660, gnl|Mm7|chr3 (88475519-88476138)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               lnt (0.142308)
               

               
               cly (0.120642)
               

               
               med (0.116252)
               

               
               jca (0.11396)

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


               
               lnt (0.142308)
               

               
               cly (0.120642)
               

               
               med (0.116252)
               

               
               jca (0.11396)

	440-635, + strand, RNAmicro p=0.965855
	528-601, - strand, RNAmicro p=0.924735

	189-100, 4065929 BARC 10BOV Bos taurus cDNA clone 10BOV12_L18 5', mRNA (gb\|CK942271.1\|), blast E-value=0.00000000000005, identity=87%
	189-553, BovGen_02386 normal cattle brain Bos taurus cDNA clone (gb\|CO874061.1\|), blast E-value=0.00000000000005, identity=87.91%
	195-573, POSM0605001_D21R porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV896157.1\|), blast E-value=0, identity=97.36%
	189-100, 001017BEMN049846HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY070201.1\|), blast E-value=0.00000000000005, identity=87%
	189-100, LB02219.CR_M08 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb\|EE240627.1\|), blast E-value=0.00000000000005, identity=87%
	189-100, LB03037.CR_N24 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE376804.1\|), blast E-value=0.00000000000005, identity=87%

	1-660, gnl\|bosTau2\|chr3 (10392124-10392790)
	1-660, gnl\|Hg17\|chr1 (153032755-153032090)
	1-660, gnl\|Mm7\|chr3 (88475519-88476138)