Non-Coding RNA Search

Ss1.1-rcbr0_006079.5.5

Sequence:


               
               TCCCCATCGGACTGTCAGCCCCACCGTGACAGGGATTTGTGTCTGTCGTAGACTCTGCCG
AGGACGAAGCCTGTGCCGAATAAGTAGCCGCTGAGAAAGTGAGTGAATGAATGAATGAAT
GAATGTCTCCTTCACTTTCTCTGTGTGTGTCTCTCTTCTGGTCTCTGAGTCTCTCCCTGT
CTCTGTGCGCCTCTCTCTCCGTCACTGTCTTTGTCTTTCTCAGTCTGTCTCTCTCCCACG
CCTCTCCCAGGCCTCCGCTCCTCCGACGGGCCAGTCCCAGCTGGCCCCGCACCCCCACCC
CCAGTTCCCAGGAGCTTCCAGCCTGGGAAGCTTCCTCAGACCAGCAGTGGAAGGGGGGGC
TGGGCCTGGTTGCAATGACCTTCACCAGAACTGTGCCCTTTCTCTGGCCGCCTCAGGCTT
TGCCGGCCACGGTGAGGGCGTCCCAGGGACTGTGAGCCGCAGGCTGGGGATGGATTGAAG
GGGTGCCCCTGGGGCGGGGGGTGGGGCACCCAGGCCAGGTCACATCCCCCTCCAGGCCTT
CAGGGCTTCCTGGGGCTGCAAACAGAACCACTCCCATCTGCTCCAACAAACATACTGGGA
GCAGAACAGACAGTGAAGCCCAAGAATTCGAATTCGGCTGAGATAAGGTTTGGGTGCCAC
AGCCCCACAGCCTCCTGGAAAAGCCTGCTGGGAAGAGCCCTGTAGATTCCCCAAACATGG
TGGGGGCCATGCCTGGTGCATAGACTGTTCTGGATCAATGACCCCCTTTTGCATAGGGGG
AAGCCACACCCCAGGGTGGGAAAGTGGCTGCTTCTCACCTCCCAGGCAGTGGCAATCTCA
CCTCCCACGGGCCCCTACAGGGTGCAAGGGGGCTCTTCCGGCCATGGGTCCCAGGCCCAG
CACCCCCAACTCATGCCACCTCATGCATGCGATCACACGCAATCATATTCCTGTCCTGCC
TCCGGCCTTCCCATGCCTTCATATGGGGCTCAGAGTAAACGCCCCAATCCCACAAGGCCC
TGGAGCATCTCTCCTCTGTATATCTCCACTCTCCCTCTGCCTTACTTTCTTTGAGCTTCC
CCCACCCAGTTCTTCACCTGCTTCTAGACCTTGGCACTTGGGGATCTGCCTGTCTGGAAA
ACCCTTCCCCAGACCTTCCTAGCTCGTATTTCCTCAGAGAGGCTTTCCCTGATGTGTCCC
CCTTCTCCCCAACCTCATGTGGCAGTTAGCACCATCTGAAATTACTTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCCCCATCGGACTGTCAGCCCCACCGTGACAGGGATTTGTGTCTGTCGTAGACTCTGCCG
AGGACGAAGCCTGTGCCGAATAAGTAGCCGCTGAGAAAGTGAGTGAATGAATGAATGAAT
GAATGTCTCCTTCACTTTCTCTGTGTGTGTCTCTCTTCTGGTCTCTGAGTCTCTCCCTGT
CTCTGTGCGCCTCTCTCTCCGTCACTGTCTTTGTCTTTCTCAGTCTGTCTCTCTCCCACG
CCTCTCCCAGGCCTCCGCTCCTCCGACGGGCCAGTCCCAGCTGGCCCCGCACCCCCACCC
CCAGTTCCCAGGAGCTTCCAGCCTGGGAAGCTTCCTCAGACCAGCAGTGGAAGGGGGGGC
TGGGCCTGGTTGCAATGACCTTCACCAGAACTGTGCCCTTTCTCTGGCCGCCTCAGGCTT
TGCCGGCCACGGTGAGGGCGTCCCAGGGACTGTGAGCCGCAGGCTGGGGATGGATTGAAG
GGGTGCCCCTGGGGCGGGGGGTGGGGCACCCAGGCCAGGTCACATCCCCCTCCAGGCCTT
CAGGGCTTCCTGGGGCTGCAAACAGAACCACTCCCATCTGCTCCAACAAACATACTGGGA
GCAGAACAGACAGTGAAGCCCAAGAATTCGAATTCGGCTGAGATAAGGTTTGGGTGCCAC
AGCCCCACAGCCTCCTGGAAAAGCCTGCTGGGAAGAGCCCTGTAGATTCCCCAAACATGG
TGGGGGCCATGCCTGGTGCATAGACTGTTCTGGATCAATGACCCCCTTTTGCATAGGGGG
AAGCCACACCCCAGGGTGGGAAAGTGGCTGCTTCTCACCTCCCAGGCAGTGGCAATCTCA
CCTCCCACGGGCCCCTACAGGGTGCAAGGGGGCTCTTCCGGCCATGGGTCCCAGGCCCAG
CACCCCCAACTCATGCCACCTCATGCATGCGATCACACGCAATCATATTCCTGTCCTGCC
TCCGGCCTTCCCATGCCTTCATATGGGGCTCAGAGTAAACGCCCCAATCCCACAAGGCCC
TGGAGCATCTCTCCTCTGTATATCTCCACTCTCCCTCTGCCTTACTTTCTTTGAGCTTCC
CCCACCCAGTTCTTCACCTGCTTCTAGACCTTGGCACTTGGGGATCTGCCTGTCTGGAAA
ACCCTTCCCCAGACCTTCCTAGCTCGTATTTCCTCAGAGAGGCTTTCCCTGATGTGTCCC
CCTTCTCCCCAACCTCATGTGGCAGTTAGCACCATCTGAAATTACTTT

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               233-381, - strand, RNAz p=0.999483
               

               
               421-584, - strand, RNAz p=0.982498
               

               
               746-883, - strand, RNAz p=0.923134

Predicted RNA structure(s): 3 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


               
               233-381, - strand, RNAz p=0.999483
               

               
               421-584, - strand, RNAz p=0.982498
               

               
               746-883, - strand, RNAz p=0.923134

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               440-519, + strand, RNAmicro p=0.996298

Predicted microRNA(s): 1 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


               
               440-519, + strand, RNAmicro p=0.996298

Similar Transcript(s): 4 entry(ies)

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Similar Transcript(s): 4 entry(ies)

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               233-381, BP153041 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BP153041.1|), blast E-value=0, identity=95.3% 
               

               
               233-381, BP461238 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BP461238.1|), blast E-value=0, identity=95.3% 
               

               
               233-381, BW969136 full-length enriched swine cDNA library, adult periphral 
(dbj|BW969136.1|), blast E-value=0, identity=94.63% 
               

               
               233-381, BW975054 full-length enriched swine cDNA library, adult periphral 
(dbj|BW975054.1|), blast E-value=0, identity=95.3%

Similar Transcript(s): 4 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


               
               233-381, BP153041 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BP153041.1|), blast E-value=0, identity=95.3% 
               

               
               233-381, BP461238 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BP461238.1|), blast E-value=0, identity=95.3% 
               

               
               233-381, BW969136 full-length enriched swine cDNA library, adult periphral 
(dbj|BW969136.1|), blast E-value=0, identity=94.63% 
               

               
               233-381, BW975054 full-length enriched swine cDNA library, adult periphral 
(dbj|BW975054.1|), blast E-value=0, identity=95.3%

Aligned organism(s): 11 entry(ies)

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Aligned organism(s): 11 entry(ies)

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               1-584, gnl|bosTau2|chr7 (10882094-10882718)
               

               
               1-584, gnl|Hg17|chr19 (10489868-10490563)
               


               
               746-1015, gnl|bosTau2|chr7 (10883089-10883353)
               

               
               746-1015, gnl|canFam2|chr20 (53644420-53644074)
               

               
               746-1015, gnl|dasNov1|scaffold_184049 (548-873)
               

               
               746-1015, gnl|hg17|chr19 (10490731-10491072)
               

               
               746-1015, gnl|Hg17|chr19 (10490751-10491107)
               

               
               746-1015, gnl|mm7|chr9 (21126773-21127137)
               

               
               746-1015, gnl|panTro1|chr20 (10883539-10883880)
               

               
               746-1015, gnl|rheMac2|chr19 (10329139-10329510)
               

               
               746-1015, gnl|rn3|chr8 (20286365-20286737)

Aligned organism(s): 11 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


               
               1-584, gnl|bosTau2|chr7 (10882094-10882718)
               

               
               1-584, gnl|Hg17|chr19 (10489868-10490563)
               


               
               746-1015, gnl|bosTau2|chr7 (10883089-10883353)
               

               
               746-1015, gnl|canFam2|chr20 (53644420-53644074)
               

               
               746-1015, gnl|dasNov1|scaffold_184049 (548-873)
               

               
               746-1015, gnl|hg17|chr19 (10490731-10491072)
               

               
               746-1015, gnl|Hg17|chr19 (10490751-10491107)
               

               
               746-1015, gnl|mm7|chr9 (21126773-21127137)
               

               
               746-1015, gnl|panTro1|chr20 (10883539-10883880)
               

               
               746-1015, gnl|rheMac2|chr19 (10329139-10329510)
               

               
               746-1015, gnl|rn3|chr8 (20286365-20286737)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               cbr (4.09521)

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


               
               cbr (4.09521)

	233-381, - strand, RNAz p=0.999483
	421-584, - strand, RNAz p=0.982498
	746-883, - strand, RNAz p=0.923134

	233-381, BP153041 full-length enriched swine cDNA library, adult ovary Sus (dbj\|BP153041.1\|), blast E-value=0, identity=95.3%
	233-381, BP461238 full-length enriched swine cDNA library, adult ovary Sus (dbj\|BP461238.1\|), blast E-value=0, identity=95.3%
	233-381, BW969136 full-length enriched swine cDNA library, adult periphral (dbj\|BW969136.1\|), blast E-value=0, identity=94.63%
	233-381, BW975054 full-length enriched swine cDNA library, adult periphral (dbj\|BW975054.1\|), blast E-value=0, identity=95.3%

	1-584, gnl\|bosTau2\|chr7 (10882094-10882718)
	1-584, gnl\|Hg17\|chr19 (10489868-10490563)

	746-1015, gnl\|bosTau2\|chr7 (10883089-10883353)
	746-1015, gnl\|canFam2\|chr20 (53644420-53644074)
	746-1015, gnl\|dasNov1\|scaffold_184049 (548-873)
	746-1015, gnl\|hg17\|chr19 (10490731-10491072)
	746-1015, gnl\|Hg17\|chr19 (10490751-10491107)
	746-1015, gnl\|mm7\|chr9 (21126773-21127137)
	746-1015, gnl\|panTro1\|chr20 (10883539-10883880)
	746-1015, gnl\|rheMac2\|chr19 (10329139-10329510)
	746-1015, gnl\|rn3\|chr8 (20286365-20286737)