Non-Coding RNA Search

Ss1.1-Pig4-TMW8029C13.3

Sequence:


               
               TTCAGTTGAGCTGACGTCCCTGAAGGGCACCCGGCGGTACAACCAGCAGGCAGCTGCCTC
TTTCTTTTCCTGTTTAGTGATGATTGCCTATGGAGTGAGTGCTTTCTTCAGCTTCCAGGC
CTGGCGAGGAGTAGGCAGCAATGCAGCCACCAGTCAGATGGCTGGTGGCTATGCCTAAGC
CACCTGTGCCATGGGCCACCTTGGGGTTGAAGGCTGCAGCTGGGTCCCAGTGCCTGAGCC
CTGCATGGAGTCAGCCCGAAAGGGCCTATCCTTGCTCCTCTCTGCTCATCCGACGCCTCA
GGCTCACCTGACACTCCCAAGGAATCGGGATCCTTCCTTCAGCAGGTGCGCTGGCTGGAG
AGAACCCAACAGCCAAGACCTCTTCTTCATCCTCCAGATTCAGCAGGTGATGGGGGAGAC
AGGACACTCTTGCTTTTGTCTTTAGGACTCTGGGGTCCGAGGCCGGGACCCAGCCTTCTC
CCTGGCACTAAATAACTAACAATGACTCCAGACCTGCAGCCTCTGACCCACCACAGAATA
AGCCTAACAAGCAGCACGTATTTATCTTTATCTTAGTTTTTGTTCTGGGAGAGCTGAGCA
CAACTCCCCAAGCCATTCTGATTCCTGAAAACGTAATTCTGGCCTGACTCCTTCCCCCAG
AGCAACATGTCACTTGTAGAAACGTGTAGAAAGAGGGTTCTGATTCTCACAGTGCAGCCT
TCCTTCCCTGCCTTTCAAACAGGCCAGTTACTTAAAGCGATTGCTCAATGATGAAAAACT
TCTCCGTGTTTCCCTCCCTTTCCCAAGCCCTCGTTTGTAATGTTCCCCTGGGGAGAAGCT
AACGTCAGTGCTGCCGCCTCCCTGACACTGCTTGACTGCCCGCGGGGACGTGAGCGTGGC
CAGGAGGGAGGGAGGGAGAGCAAGGTCTTGCCTGTGAGTTGTCCTGTGCTTGGTGGGGAC
TCTGTTGGTTTTGTTTTTTTTTTGTTTTTTACAAAAATAAAGATGAAAGAACTTATTTGG
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTCAGTTGAGCTGACGTCCCTGAAGGGCACCCGGCGGTACAACCAGCAGGCAGCTGCCTC
TTTCTTTTCCTGTTTAGTGATGATTGCCTATGGAGTGAGTGCTTTCTTCAGCTTCCAGGC
CTGGCGAGGAGTAGGCAGCAATGCAGCCACCAGTCAGATGGCTGGTGGCTATGCCTAAGC
CACCTGTGCCATGGGCCACCTTGGGGTTGAAGGCTGCAGCTGGGTCCCAGTGCCTGAGCC
CTGCATGGAGTCAGCCCGAAAGGGCCTATCCTTGCTCCTCTCTGCTCATCCGACGCCTCA
GGCTCACCTGACACTCCCAAGGAATCGGGATCCTTCCTTCAGCAGGTGCGCTGGCTGGAG
AGAACCCAACAGCCAAGACCTCTTCTTCATCCTCCAGATTCAGCAGGTGATGGGGGAGAC
AGGACACTCTTGCTTTTGTCTTTAGGACTCTGGGGTCCGAGGCCGGGACCCAGCCTTCTC
CCTGGCACTAAATAACTAACAATGACTCCAGACCTGCAGCCTCTGACCCACCACAGAATA
AGCCTAACAAGCAGCACGTATTTATCTTTATCTTAGTTTTTGTTCTGGGAGAGCTGAGCA
CAACTCCCCAAGCCATTCTGATTCCTGAAAACGTAATTCTGGCCTGACTCCTTCCCCCAG
AGCAACATGTCACTTGTAGAAACGTGTAGAAAGAGGGTTCTGATTCTCACAGTGCAGCCT
TCCTTCCCTGCCTTTCAAACAGGCCAGTTACTTAAAGCGATTGCTCAATGATGAAAAACT
TCTCCGTGTTTCCCTCCCTTTCCCAAGCCCTCGTTTGTAATGTTCCCCTGGGGAGAAGCT
AACGTCAGTGCTGCCGCCTCCCTGACACTGCTTGACTGCCCGCGGGGACGTGAGCGTGGC
CAGGAGGGAGGGAGGGAGAGCAAGGTCTTGCCTGTGAGTTGTCCTGTGCTTGGTGGGGAC
TCTGTTGGTTTTGTTTTTTTTTTGTTTTTTACAAAAATAAAGATGAAAGAACTTATTTGG
AAAAAAAAAAAA

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

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

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               62-236, + strand, RNAz p=0.999943

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


               
               62-236, + 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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               97-216, - strand, RNAmicro p=0.998135
               

               
               199-290, + strand, RNAmicro p=0.992827

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


               
               97-216, - strand, RNAmicro p=0.998135
               

               
               199-290, + strand, RNAmicro p=0.992827

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               62-199, LB02811.CR_I06 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV908566.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, LB0289.CR_H20 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV915967.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, 000326BMPA002444HT BMPA Bos taurus cDNA, mRNA sequence (gb|DY085400.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, 001015BEMN050425HT BEMN Bos taurus cDNA, mRNA sequence (gb|DY166330.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, LB02057.CR_A04 GC_BGC-20 Bos taurus cDNA clone IMAGE (gb|EE339508.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, LB02755.CR_C01 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|EE349354.1|), 
blast E-value=0, identity=94.93%

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


               
               62-199, LB02811.CR_I06 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV908566.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, LB0289.CR_H20 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV915967.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, 000326BMPA002444HT BMPA Bos taurus cDNA, mRNA sequence (gb|DY085400.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, 001015BEMN050425HT BEMN Bos taurus cDNA, mRNA sequence (gb|DY166330.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, LB02057.CR_A04 GC_BGC-20 Bos taurus cDNA clone IMAGE (gb|EE339508.1|), 
blast E-value=0, identity=94.93% 
               

               
               62-199, LB02755.CR_C01 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|EE349354.1|), 
blast E-value=0, identity=94.93%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_015993, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_015993, +

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               62-894, gnl|bosTau2|chr18 (24156161-24157024)
               

               
               62-894, gnl|Hg17|chr16 (55848442-55847598)

Aligned organism(s): 2 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


               
               62-894, gnl|bosTau2|chr18 (24156161-24157024)
               

               
               62-894, gnl|Hg17|chr16 (55848442-55847598)

Expressed library(ies): 8 entry(ies)

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Expressed library(ies): 8 entry(ies)

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               fbs (1.22742)
               

               
               cut (0.339847)
               

               
               jej (0.197844)
               

               
               fcc (0.197785)
               

               
               duo (0.172801)
               

               
               hyp (0.142837)
               

               
               cst (0.140036)
               

               
               pla (0.133672)

Expressed library(ies): 8 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


               
               fbs (1.22742)
               

               
               cut (0.339847)
               

               
               jej (0.197844)
               

               
               fcc (0.197785)
               

               
               duo (0.172801)
               

               
               hyp (0.142837)
               

               
               cst (0.140036)
               

               
               pla (0.133672)

	97-216, - strand, RNAmicro p=0.998135
	199-290, + strand, RNAmicro p=0.992827

	62-199, LB02811.CR_I06 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb\|DV908566.1\|), blast E-value=0, identity=94.93%
	62-199, LB0289.CR_H20 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb\|DV915967.1\|), blast E-value=0, identity=94.93%
	62-199, 000326BMPA002444HT BMPA Bos taurus cDNA, mRNA sequence (gb\|DY085400.1\|), blast E-value=0, identity=94.93%
	62-199, 001015BEMN050425HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY166330.1\|), blast E-value=0, identity=94.93%
	62-199, LB02057.CR_A04 GC_BGC-20 Bos taurus cDNA clone IMAGE (gb\|EE339508.1\|), blast E-value=0, identity=94.93%
	62-199, LB02755.CR_C01 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|EE349354.1\|), blast E-value=0, identity=94.93%

	62-894, gnl\|bosTau2\|chr18 (24156161-24157024)
	62-894, gnl\|Hg17\|chr16 (55848442-55847598)

	fbs (1.22742)
	cut (0.339847)
	jej (0.197844)
	fcc (0.197785)
	duo (0.172801)
	hyp (0.142837)
	cst (0.140036)
	pla (0.133672)