Non-Coding RNA Search

Ss1.1-rnmm10c_o18.5

Sequence:


               
               CAGCCCCGGGCCACTCGGCTGGGCAGAGGAGAAGGAGGTTGATTGTTGCCCCTAGACTGA
AAAACGAAGGGCTGCACCTTCCCCCAGGAATGACCCTCGATCCCAGGATCTGAGAAGGCC
CCACTCGCCCTCCTCTGGGAGGGGGAAGCATCAGGGCGATGGGAATCGGAGGCCTTGCCA
CGCCTGTGCCCGGGTTTCCCCTTCCGTGGGGAAGAAGGGGTCTGACATAACCCGTGCCAT
GTGCCTAAGAGCAAGGCCGGCCAGAGACCTGTGTCAGTGCCTGGAGCGGGCTCTCTGCCC
CTCGGGGGCTGGGGACAGCTTTGAACAGCCTCCAGGGAGTGGAGTGGGGGGTGTCTCCTC
ATCCCTTCCATGCACCCCCTCTCCTGAACACAGAAAGGAATTGGCACAGCGGCCCCCAGA
TCCAGTTCTGTGCCGGCAACCTCATTCTTTGTCTGATGGAGAAAGGGGGCCCAGGTCCTA
CGCCACTGCGCCCTCCCAGACCTTGAGGGGAGGTCTCCCAGGAGGTGAGGGGCGGGGACT
CCAGGACAGGATTCGGAGACTCTTCCGAGCCTCCCTCCCAGGCTCCCCGCCCGCTCCCTC
TTCCCTCACCAGGCCCTGCGGCTCCTGCTCTGTCAGCCCCAACTCCCTGGGCTTTCCAGA
GAGTTATCGCTGCTCAGGCCCAAACCCTCGGCTCCAGGGGGAGTCCCAGGGCGCAGCACC
CAGGCTGCTGGCGGCAGGCTGAAGATCCTAAACTCCTGGCGTGCACATTCTGCCCTGGCC
TCTTGCCCTTTGCCTCCCAGTGGTATTTGAATAAAGTATGTAGCTCTGTTCTGCCCCTAT
TCTCCTGTTCTGCAGCCCCCACAATCTACATGTAACTCATTACTGCCCCCCTCTTATTTA
TCTCAGTAGCTCCCTCTCCCCTCTCCCCTCTGCTAGGTACTCCAGCCTCTATTAACTCTG
CATTAAGCATTCCACATAATAAAAGTAAAGGTTCCGGTTAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGCCCCGGGCCACTCGGCTGGGCAGAGGAGAAGGAGGTTGATTGTTGCCCCTAGACTGA
AAAACGAAGGGCTGCACCTTCCCCCAGGAATGACCCTCGATCCCAGGATCTGAGAAGGCC
CCACTCGCCCTCCTCTGGGAGGGGGAAGCATCAGGGCGATGGGAATCGGAGGCCTTGCCA
CGCCTGTGCCCGGGTTTCCCCTTCCGTGGGGAAGAAGGGGTCTGACATAACCCGTGCCAT
GTGCCTAAGAGCAAGGCCGGCCAGAGACCTGTGTCAGTGCCTGGAGCGGGCTCTCTGCCC
CTCGGGGGCTGGGGACAGCTTTGAACAGCCTCCAGGGAGTGGAGTGGGGGGTGTCTCCTC
ATCCCTTCCATGCACCCCCTCTCCTGAACACAGAAAGGAATTGGCACAGCGGCCCCCAGA
TCCAGTTCTGTGCCGGCAACCTCATTCTTTGTCTGATGGAGAAAGGGGGCCCAGGTCCTA
CGCCACTGCGCCCTCCCAGACCTTGAGGGGAGGTCTCCCAGGAGGTGAGGGGCGGGGACT
CCAGGACAGGATTCGGAGACTCTTCCGAGCCTCCCTCCCAGGCTCCCCGCCCGCTCCCTC
TTCCCTCACCAGGCCCTGCGGCTCCTGCTCTGTCAGCCCCAACTCCCTGGGCTTTCCAGA
GAGTTATCGCTGCTCAGGCCCAAACCCTCGGCTCCAGGGGGAGTCCCAGGGCGCAGCACC
CAGGCTGCTGGCGGCAGGCTGAAGATCCTAAACTCCTGGCGTGCACATTCTGCCCTGGCC
TCTTGCCCTTTGCCTCCCAGTGGTATTTGAATAAAGTATGTAGCTCTGTTCTGCCCCTAT
TCTCCTGTTCTGCAGCCCCCACAATCTACATGTAACTCATTACTGCCCCCCTCTTATTTA
TCTCAGTAGCTCCCTCTCCCCTCTCCCCTCTGCTAGGTACTCCAGCCTCTATTAACTCTG
CATTAAGCATTCCACATAATAAAAGTAAAGGTTCCGGTTAAAAAAAAA

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

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

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               40-229, - strand, RNAz p=0.865087
               

               
               299-476, - strand, RNAz p=0.982661
               

               
               517-751, - strand, RNAz p=0.999763

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


               
               40-229, - strand, RNAz p=0.865087
               

               
               299-476, - strand, RNAz p=0.982661
               

               
               517-751, - strand, RNAz p=0.999763

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               571-752, - strand, RNAmicro p=0.999976
               

               
               564-649, + strand, RNAmicro p=0.962496

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


               
               571-752, - strand, RNAmicro p=0.999976
               

               
               564-649, + strand, RNAmicro p=0.962496

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               567-745, AV724141 HTB Homo sapiens cDNA clone HTBAAH03 5', mRNA sequence 
(dbj|AV724141.2|), blast E-value=3e-25, identity=85% 
               

               
               567-745, BX117655 Soares_NhHMPu_S1 Homo sapiens cDNA clone IMAGp998O021887 ; 
(emb|BX117655.1|), blast E-value=3e-25, identity=85% 
               

               
               567-745, AGENCOURT_8585081 Lupski_sympathetic_trunk Homo sapiens cDNA clone 
(gb|BQ876385.1|), blast E-value=3e-25, identity=85% 
               

               
               567-745, AGENCOURT_7973229 NIH_MGC_72 Homo sapiens cDNA clone IMAGE 
(gb|BU172596.1|), blast E-value=3e-25, identity=85% 
               

               
               567-745, UI-E-CQ1-afz-m-12-0-UI.s1 UI-E-CQ1 Homo sapiens cDNA clone 
(gb|BU732691.1|), blast E-value=3e-25, identity=85% 
               

               
               567-745, AGENCOURT_15337602 Lupski_anterior_horn Homo sapiens cDNA clone 
(gb|CF454503.1|), blast E-value=3e-25, identity=85%

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


               
               567-745, AV724141 HTB Homo sapiens cDNA clone HTBAAH03 5', mRNA sequence 
(dbj|AV724141.2|), blast E-value=3e-25, identity=85% 
               

               
               567-745, BX117655 Soares_NhHMPu_S1 Homo sapiens cDNA clone IMAGp998O021887 ; 
(emb|BX117655.1|), blast E-value=3e-25, identity=85% 
               

               
               567-745, AGENCOURT_8585081 Lupski_sympathetic_trunk Homo sapiens cDNA clone 
(gb|BQ876385.1|), blast E-value=3e-25, identity=85% 
               

               
               567-745, AGENCOURT_7973229 NIH_MGC_72 Homo sapiens cDNA clone IMAGE 
(gb|BU172596.1|), blast E-value=3e-25, identity=85% 
               

               
               567-745, UI-E-CQ1-afz-m-12-0-UI.s1 UI-E-CQ1 Homo sapiens cDNA clone 
(gb|BU732691.1|), blast E-value=3e-25, identity=85% 
               

               
               567-745, AGENCOURT_15337602 Lupski_anterior_horn Homo sapiens cDNA clone 
(gb|CF454503.1|), blast E-value=3e-25, identity=85%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               1-1000, gnl|bosTau2|chr5 (67015702-67016747)
               

               
               1-1000, gnl|Hg17|chr22 (36693810-36692819)

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


               
               1-1000, gnl|bosTau2|chr5 (67015702-67016747)
               

               
               1-1000, gnl|Hg17|chr22 (36693810-36692819)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               cga (0.279096)
               

               
               ebs (0.236602)
               

               
               nep (0.183925)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)
               

               
               nmm (0.132802)

Expressed library(ies): 6 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


               
               cga (0.279096)
               

               
               ebs (0.236602)
               

               
               nep (0.183925)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)
               

               
               nmm (0.132802)

	40-229, - strand, RNAz p=0.865087
	299-476, - strand, RNAz p=0.982661
	517-751, - strand, RNAz p=0.999763

	571-752, - strand, RNAmicro p=0.999976
	564-649, + strand, RNAmicro p=0.962496

	567-745, AV724141 HTB Homo sapiens cDNA clone HTBAAH03 5', mRNA sequence (dbj\|AV724141.2\|), blast E-value=3e-25, identity=85%
	567-745, BX117655 Soares_NhHMPu_S1 Homo sapiens cDNA clone IMAGp998O021887 ; (emb\|BX117655.1\|), blast E-value=3e-25, identity=85%
	567-745, AGENCOURT_8585081 Lupski_sympathetic_trunk Homo sapiens cDNA clone (gb\|BQ876385.1\|), blast E-value=3e-25, identity=85%
	567-745, AGENCOURT_7973229 NIH_MGC_72 Homo sapiens cDNA clone IMAGE (gb\|BU172596.1\|), blast E-value=3e-25, identity=85%
	567-745, UI-E-CQ1-afz-m-12-0-UI.s1 UI-E-CQ1 Homo sapiens cDNA clone (gb\|BU732691.1\|), blast E-value=3e-25, identity=85%
	567-745, AGENCOURT_15337602 Lupski_anterior_horn Homo sapiens cDNA clone (gb\|CF454503.1\|), blast E-value=3e-25, identity=85%

	1-1000, gnl\|bosTau2\|chr5 (67015702-67016747)
	1-1000, gnl\|Hg17\|chr22 (36693810-36692819)

	cga (0.279096)
	ebs (0.236602)
	nep (0.183925)
	hyp (0.142837)
	pty (0.142714)
	nmm (0.132802)