Non-Coding RNA Search

Ss1.1-Pig4-TMW8026M10.5

Sequence:


               
               ACTGAGTCCAGAGAGGGGATGTGACTTGTCCAAGGCTACAGAGCAGTTCACGGTTGAGGC
GGGATTGGAACCCGGTGCTCCCTCTGTCTTCCTCAGGAACCAGCGAGATTGTCCTTGGAG
GCATCGTGGACAGACTGGGGCAGCCCAGGAGACAAGGGGCCTGAGGATGGGTTAGAGAGA
GCAGAGAGATTCGTGTTGCCACTGCTTGCTCAGTGGGGCTGTTGTGGGGGTGGGGAGTGG
AGGTGGATAGAGGGCTGAGCTAGAAATGAAGGGCGATGGCTCAAAGATAAGGAGGCAGAT
TTCAATCAGAATGTGGGTGGTTTTTTACCTTCAGAGCTAGCCAACCATGAAAGGGAGTGA
GCTCACAGGCTCTGGAGGCAATCAAGCAGAAGTAGAAGATCCAAGTGGTTGGGAGGCCTT
GGCCTCAGGAAGGAACCCCTGGTCCTCCTTCCCCCAATTCGTCCTGTGTCATTTCAATGC
CTGGCCCCTGCTCTTCTCCCCAAGTTGGCACCCCTTAACTCGTGCATAGGGAAAGGAGTG
CCTGTGCTGGGATGAGAGAGGACCGGGGTGTCTATTAATGTGCACCAGGTCTGGCCCTGT
GCCCTTGGGCAGCCCCTGCTTCCTCTCTGGATTGCAGTGTCTGTCTCCATATGTGGCCAT
GGCACTGCCACTGCTCTGCAACTGCTCCACTCCTGTCCAGATCCTGTGGCCTGGCGCCAC
GTGGTGAGGCCAGCCCGTGGTATGAAGGGTTGGTGTTTTGGCCCTAGTTCTGCCGTGCAG
CCTTGGGAATATCTGGTGGCTTCTCCCCGGGCCTCAGTGTGCCCTTCCTAAAAGGGGCAG
CTGACAATTTGTAGGCATTGTGCCAAGGGCCCTTGTGTGCGTGTACGTGTGTGTGTGTGC
GTGTGCATGTGTGTTGCTCCATGTGTGTGTCCATATTTAACATGTAAAAATGCCCCCTGC
TCTGTTCCCCAGACATGTTGTACATTTCACCCGCAGCCCCCACCACCCCCATCATAGCAA
TAACACTCCCGCTGCCAGGGGTTCTCGAGCCAGCCAGGCCCTGCCAGTGGGGAAGGAGGC
CAAGCGGTGCCTGCCTATGAAATTTCAACTTTTTCTTTCATACATGTTTATTACCCGAGT
CTTCTCCTGTCCGCCCTGGTCAAATCTGGGCTCACTTACCCCGGCGTGATCTCAAATGCT
GTTCCGACTGCCCAGCACCCTTTGTATAAGGTGTCCTAATACGGTCCCTTTTTTTAAAAA
AACAGTGTTTTGTAGATTTCAGATGACTATGCAGAGGCCTAGGGGACCCCCCGGCTCTGG
GCAGGGCCTGGGGGAGTCCCACATTCCACAGCCCAGGCCTGGGGGGGGAGGGGGGTTTGG
AATTGGTTGTAAATACTTTGCATATTGTCTGATTAAACACAAACAGACCTCAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACTGAGTCCAGAGAGGGGATGTGACTTGTCCAAGGCTACAGAGCAGTTCACGGTTGAGGC
GGGATTGGAACCCGGTGCTCCCTCTGTCTTCCTCAGGAACCAGCGAGATTGTCCTTGGAG
GCATCGTGGACAGACTGGGGCAGCCCAGGAGACAAGGGGCCTGAGGATGGGTTAGAGAGA
GCAGAGAGATTCGTGTTGCCACTGCTTGCTCAGTGGGGCTGTTGTGGGGGTGGGGAGTGG
AGGTGGATAGAGGGCTGAGCTAGAAATGAAGGGCGATGGCTCAAAGATAAGGAGGCAGAT
TTCAATCAGAATGTGGGTGGTTTTTTACCTTCAGAGCTAGCCAACCATGAAAGGGAGTGA
GCTCACAGGCTCTGGAGGCAATCAAGCAGAAGTAGAAGATCCAAGTGGTTGGGAGGCCTT
GGCCTCAGGAAGGAACCCCTGGTCCTCCTTCCCCCAATTCGTCCTGTGTCATTTCAATGC
CTGGCCCCTGCTCTTCTCCCCAAGTTGGCACCCCTTAACTCGTGCATAGGGAAAGGAGTG
CCTGTGCTGGGATGAGAGAGGACCGGGGTGTCTATTAATGTGCACCAGGTCTGGCCCTGT
GCCCTTGGGCAGCCCCTGCTTCCTCTCTGGATTGCAGTGTCTGTCTCCATATGTGGCCAT
GGCACTGCCACTGCTCTGCAACTGCTCCACTCCTGTCCAGATCCTGTGGCCTGGCGCCAC
GTGGTGAGGCCAGCCCGTGGTATGAAGGGTTGGTGTTTTGGCCCTAGTTCTGCCGTGCAG
CCTTGGGAATATCTGGTGGCTTCTCCCCGGGCCTCAGTGTGCCCTTCCTAAAAGGGGCAG
CTGACAATTTGTAGGCATTGTGCCAAGGGCCCTTGTGTGCGTGTACGTGTGTGTGTGTGC
GTGTGCATGTGTGTTGCTCCATGTGTGTGTCCATATTTAACATGTAAAAATGCCCCCTGC
TCTGTTCCCCAGACATGTTGTACATTTCACCCGCAGCCCCCACCACCCCCATCATAGCAA
TAACACTCCCGCTGCCAGGGGTTCTCGAGCCAGCCAGGCCCTGCCAGTGGGGAAGGAGGC
CAAGCGGTGCCTGCCTATGAAATTTCAACTTTTTCTTTCATACATGTTTATTACCCGAGT
CTTCTCCTGTCCGCCCTGGTCAAATCTGGGCTCACTTACCCCGGCGTGATCTCAAATGCT
GTTCCGACTGCCCAGCACCCTTTGTATAAGGTGTCCTAATACGGTCCCTTTTTTTAAAAA
AACAGTGTTTTGTAGATTTCAGATGACTATGCAGAGGCCTAGGGGACCCCCCGGCTCTGG
GCAGGGCCTGGGGGAGTCCCACATTCCACAGCCCAGGCCTGGGGGGGGAGGGGGGTTTGG
AATTGGTTGTAAATACTTTGCATATTGTCTGATTAAACACAAACAGACCTCAAAAAAAAA

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

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

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               356-591, - strand, RNAz p=0.979249
               

               
               1217-1398, - strand, RNAz p=0.998663

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


               
               356-591, - strand, RNAz p=0.979249
               

               
               1217-1398, - strand, RNAz p=0.998663

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               1322-1445, + strand, RNAmicro p=0.999937
               

               
               478-628, - strand, RNAmicro p=0.994523
               

               
               492-577, + strand, RNAmicro p=0.947738

Predicted microRNA(s): 3 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


               
               1322-1445, + strand, RNAmicro p=0.999937
               

               
               478-628, - strand, RNAmicro p=0.994523
               

               
               492-577, + strand, RNAmicro p=0.947738

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1263-1360, 962551 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK773860.1|), 
blast E-value=1e-23, identity=91.84% 
               

               
               1263-1358, DG11-153j24 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO682445.1|), blast E-value=2e-22, identity=91.67% 
               

               
               1263-1358, DG11-276n19 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO690566.1|), blast E-value=2e-22, identity=91.67% 
               

               
               1263-1358, DG11-68h22 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO693839.1|), blast E-value=2e-22, identity=91.67% 
               

               
               1263-1358, DG14-76e7 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO719053.1|), blast E-value=2e-22, identity=91.67% 
               

               
               1263-1360, BovGen_05014 normal cattle brain Bos taurus cDNA clone 
(gb|CO876689.1|), blast E-value=1e-23, identity=91.84%

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


               
               1263-1360, 962551 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK773860.1|), 
blast E-value=1e-23, identity=91.84% 
               

               
               1263-1358, DG11-153j24 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO682445.1|), blast E-value=2e-22, identity=91.67% 
               

               
               1263-1358, DG11-276n19 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO690566.1|), blast E-value=2e-22, identity=91.67% 
               

               
               1263-1358, DG11-68h22 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO693839.1|), blast E-value=2e-22, identity=91.67% 
               

               
               1263-1358, DG14-76e7 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO719053.1|), blast E-value=2e-22, identity=91.67% 
               

               
               1263-1360, BovGen_05014 normal cattle brain Bos taurus cDNA clone 
(gb|CO876689.1|), blast E-value=1e-23, identity=91.84%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1432, gnl|bosTau2|chr13 (49325098-49323711)
               

               
               1-1432, gnl|Hg17|chr20 (35465870-35467232)
               

               
               1-1432, gnl|Mm7|chr2 (157211442-157212727)

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


               
               1-1432, gnl|bosTau2|chr13 (49325098-49323711)
               

               
               1-1432, gnl|Hg17|chr20 (35465870-35467232)
               

               
               1-1432, gnl|Mm7|chr2 (157211442-157212727)

Expressed library(ies): 11 entry(ies)

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Expressed library(ies): 11 entry(ies)

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               clu (0.358938)
               

               
               nje (0.33184)
               

               
               csp (0.322373)
               

               
               ecc (0.23007)
               

               
               mas (0.210305)
               

               
               nlu (0.191681)
               

               
               pla (0.133672)
               

               
               nmm (0.132802)
               

               
               cov (0.132153)
               

               
               cly (0.120642)
               

               
               cty (0.10408)

Expressed library(ies): 11 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


               
               clu (0.358938)
               

               
               nje (0.33184)
               

               
               csp (0.322373)
               

               
               ecc (0.23007)
               

               
               mas (0.210305)
               

               
               nlu (0.191681)
               

               
               pla (0.133672)
               

               
               nmm (0.132802)
               

               
               cov (0.132153)
               

               
               cly (0.120642)
               

               
               cty (0.10408)

	356-591, - strand, RNAz p=0.979249
	1217-1398, - strand, RNAz p=0.998663

	1322-1445, + strand, RNAmicro p=0.999937
	478-628, - strand, RNAmicro p=0.994523
	492-577, + strand, RNAmicro p=0.947738

	1263-1360, 962551 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK773860.1\|), blast E-value=1e-23, identity=91.84%
	1263-1358, DG11-153j24 DG11-kidney Canis familiaris cDNA 3', mRNA sequence (gb\|CO682445.1\|), blast E-value=2e-22, identity=91.67%
	1263-1358, DG11-276n19 DG11-kidney Canis familiaris cDNA 3', mRNA sequence (gb\|CO690566.1\|), blast E-value=2e-22, identity=91.67%
	1263-1358, DG11-68h22 DG11-kidney Canis familiaris cDNA 3', mRNA sequence (gb\|CO693839.1\|), blast E-value=2e-22, identity=91.67%
	1263-1358, DG14-76e7 DG14-muscle Canis familiaris cDNA 3', mRNA sequence (gb\|CO719053.1\|), blast E-value=2e-22, identity=91.67%
	1263-1360, BovGen_05014 normal cattle brain Bos taurus cDNA clone (gb\|CO876689.1\|), blast E-value=1e-23, identity=91.84%

	1-1432, gnl\|bosTau2\|chr13 (49325098-49323711)
	1-1432, gnl\|Hg17\|chr20 (35465870-35467232)
	1-1432, gnl\|Mm7\|chr2 (157211442-157212727)

	clu (0.358938)
	nje (0.33184)
	csp (0.322373)
	ecc (0.23007)
	mas (0.210305)
	nlu (0.191681)
	pla (0.133672)
	nmm (0.132802)
	cov (0.132153)
	cly (0.120642)
	cty (0.10408)