Non-Coding RNA Search

Ss1.1-rcsk27_m18.5

Sequence:


               
               GAAACATTCTCATTTTTAAATACCAAGAACTAATCCAAAAAAACTTAAATACTGCTAGTT
AAATACTTCTGCAGCTGGATTTCACTAACAAGCTGCCAAGTTGCAACCTCTCATTCTAGA
AACTTCTGTCATTTCCATCATAGTGAGTTTGTGAAGACAGAATCCTCCAGTCCAGACGAA
CTCCATAATATAATGACTGTCGTCCTCAGCCCAGCTCAGACATGGCAGTCACATGATTTT
GTGTCCACAGGGATGGAGAGGCCTTGGTGTCCTCACATACATTCTTCCAGCCAACATTTA
TCCAACAGCCACTGACCTGCTATAATGTAGACCTATTTCCTCTCAATCCAGTATGAGTTG
ATAGGGGAAAGGCAGGTGATGGAAGTCAAGATAAATCACTGTTGGGGTATATTGGTGTCT
TCCACAACTTTTGGCTTGACTAAAGCCAATACATTAAATACTGTTAATGCCCGAGTGGGT
TCACCCAGTGAGAAGGGGTTATCTTAAACTGCCCAGAGCACTCACGTGTTAAATTGTATT
CCCATGCGTAGTCAGGTGAACCGTGTTGATGATAAAATAGCTGAACTTTCTAAACAGGAG
AGGGGGCTGTAATCCCAGAGTGTTATTACCTCTCTTGCTTTAAATGGTAATCTTACAGGT
TGCATTCTGCTCTTCTTTTGTTTTGGCATAGATATATATATAGAGAGAGATACTATAAGT
TTATTTCTTAGGAAGTGCACTGAATAATGTATTTCTTTTACAGTGTAATATGGGGGTGGG
GAAATACGAAAGAAATGCGTATTTTTGCTAGTTGCCTATCTTCTGAGATAAGTAAGCACA
ATACTGCAATGGATCCAAAAATCCAGTTAGGTATTATAGTATTTAAGTTTGCTGTAGATT
GTGTGTGTACTAAGTAAAAGTTCCATGATTCACAAT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAAACATTCTCATTTTTAAATACCAAGAACTAATCCAAAAAAACTTAAATACTGCTAGTT
AAATACTTCTGCAGCTGGATTTCACTAACAAGCTGCCAAGTTGCAACCTCTCATTCTAGA
AACTTCTGTCATTTCCATCATAGTGAGTTTGTGAAGACAGAATCCTCCAGTCCAGACGAA
CTCCATAATATAATGACTGTCGTCCTCAGCCCAGCTCAGACATGGCAGTCACATGATTTT
GTGTCCACAGGGATGGAGAGGCCTTGGTGTCCTCACATACATTCTTCCAGCCAACATTTA
TCCAACAGCCACTGACCTGCTATAATGTAGACCTATTTCCTCTCAATCCAGTATGAGTTG
ATAGGGGAAAGGCAGGTGATGGAAGTCAAGATAAATCACTGTTGGGGTATATTGGTGTCT
TCCACAACTTTTGGCTTGACTAAAGCCAATACATTAAATACTGTTAATGCCCGAGTGGGT
TCACCCAGTGAGAAGGGGTTATCTTAAACTGCCCAGAGCACTCACGTGTTAAATTGTATT
CCCATGCGTAGTCAGGTGAACCGTGTTGATGATAAAATAGCTGAACTTTCTAAACAGGAG
AGGGGGCTGTAATCCCAGAGTGTTATTACCTCTCTTGCTTTAAATGGTAATCTTACAGGT
TGCATTCTGCTCTTCTTTTGTTTTGGCATAGATATATATATAGAGAGAGATACTATAAGT
TTATTTCTTAGGAAGTGCACTGAATAATGTATTTCTTTTACAGTGTAATATGGGGGTGGG
GAAATACGAAAGAAATGCGTATTTTTGCTAGTTGCCTATCTTCTGAGATAAGTAAGCACA
ATACTGCAATGGATCCAAAAATCCAGTTAGGTATTATAGTATTTAAGTTTGCTGTAGATT
GTGTGTGTACTAAGTAAAAGTTCCATGATTCACAAT

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

More info

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

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               56-169, - strand, RNAz p=0.888564
               

               
               58-169, - strand, RNAz p=0.796645
               

               
               719-832, + strand, RNAz p=0.939495

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


               
               56-169, - strand, RNAz p=0.888564
               

               
               58-169, - strand, RNAz p=0.796645
               

               
               719-832, + strand, RNAz p=0.939495

Aligned organism(s): 16 entry(ies)

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Aligned organism(s): 16 entry(ies)

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               1-169, gnl|bosTau2|chr3 (27650673-27650506)
               

               
               1-169, gnl|canFam2|chr17 (66157549-66157176)
               

               
               1-169, gnl|dasNov1|scaffold_45589 (44668-45064)
               

               
               1-169, gnl|echTel1|scaffold_317426 (33756-33423)
               

               
               1-169, gnl|hg17|chr1 (112713498-112713900)
               

               
               1-169, gnl|Hg17|chr1 (112713724-112713898)
               

               
               1-169, gnl|loxAfr1|scaffold_17939 (67149-67543)
               

               
               1-169, gnl|mm7|chr3 (104800617-104800257)
               

               
               1-169, gnl|Mm7|chr3 (104800416-104800257)
               

               
               1-169, gnl|oryCun1|scaffold_200963 (3580-3979)
               

               
               1-169, gnl|panTro1|chr1 (109548114-109547712)
               

               
               1-169, gnl|rheMac2|chr1 (115439960-115440358)
               

               
               1-169, gnl|rn3|chr2 (200236703-200236294)
               


               
               316-936, gnl|bosTau2|chr3 (27650136-27649520)
               

               
               316-936, gnl|Hg17|chr1 (112714091-112714730)
               

               
               316-936, gnl|Mm7|chr3 (104799907-104799267)

Aligned organism(s): 16 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


               
               1-169, gnl|bosTau2|chr3 (27650673-27650506)
               

               
               1-169, gnl|canFam2|chr17 (66157549-66157176)
               

               
               1-169, gnl|dasNov1|scaffold_45589 (44668-45064)
               

               
               1-169, gnl|echTel1|scaffold_317426 (33756-33423)
               

               
               1-169, gnl|hg17|chr1 (112713498-112713900)
               

               
               1-169, gnl|Hg17|chr1 (112713724-112713898)
               

               
               1-169, gnl|loxAfr1|scaffold_17939 (67149-67543)
               

               
               1-169, gnl|mm7|chr3 (104800617-104800257)
               

               
               1-169, gnl|Mm7|chr3 (104800416-104800257)
               

               
               1-169, gnl|oryCun1|scaffold_200963 (3580-3979)
               

               
               1-169, gnl|panTro1|chr1 (109548114-109547712)
               

               
               1-169, gnl|rheMac2|chr1 (115439960-115440358)
               

               
               1-169, gnl|rn3|chr2 (200236703-200236294)
               


               
               316-936, gnl|bosTau2|chr3 (27650136-27649520)
               

               
               316-936, gnl|Hg17|chr1 (112714091-112714730)
               

               
               316-936, gnl|Mm7|chr3 (104799907-104799267)

Expressed library(ies): 6 entry(ies)

More info

Expressed library(ies): 6 entry(ies)

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               sme (0.305437)
               

               
               hea (0.204499)
               

               
               spl (0.143184)
               

               
               lnt (0.142308)
               

               
               csk (0.140746)
               

               
               cly (0.120642)

Expressed library(ies): 6 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


               
               sme (0.305437)
               

               
               hea (0.204499)
               

               
               spl (0.143184)
               

               
               lnt (0.142308)
               

               
               csk (0.140746)
               

               
               cly (0.120642)

	56-169, - strand, RNAz p=0.888564
	58-169, - strand, RNAz p=0.796645
	719-832, + strand, RNAz p=0.939495

	1-169, gnl\|bosTau2\|chr3 (27650673-27650506)
	1-169, gnl\|canFam2\|chr17 (66157549-66157176)
	1-169, gnl\|dasNov1\|scaffold_45589 (44668-45064)
	1-169, gnl\|echTel1\|scaffold_317426 (33756-33423)
	1-169, gnl\|hg17\|chr1 (112713498-112713900)
	1-169, gnl\|Hg17\|chr1 (112713724-112713898)
	1-169, gnl\|loxAfr1\|scaffold_17939 (67149-67543)
	1-169, gnl\|mm7\|chr3 (104800617-104800257)
	1-169, gnl\|Mm7\|chr3 (104800416-104800257)
	1-169, gnl\|oryCun1\|scaffold_200963 (3580-3979)
	1-169, gnl\|panTro1\|chr1 (109548114-109547712)
	1-169, gnl\|rheMac2\|chr1 (115439960-115440358)
	1-169, gnl\|rn3\|chr2 (200236703-200236294)

	316-936, gnl\|bosTau2\|chr3 (27650136-27649520)
	316-936, gnl\|Hg17\|chr1 (112714091-112714730)
	316-936, gnl\|Mm7\|chr3 (104799907-104799267)

	sme (0.305437)
	hea (0.204499)
	spl (0.143184)
	lnt (0.142308)
	csk (0.140746)
	cly (0.120642)