Non-Coding RNA Search

Ss1.1-Pig4-TMW8045O02.3

Sequence:


               
               GGTCAGAGGCGCCTTCATCATCAGGCAGCTCTGCCTCCTGCTGAACGCGGAGAACATCTT
CCACTCGATGGCGGACATCCTGCTCCGGGAGGAGGACCTCAAGTTCGCCTCGACCATGGT
CCACACCCTCAACACCATCCTGCTCACGTCCACCGAGCTCTTCCAGCTGCGGAACCAGCT
CAAGGACCTGAGGACCCCGGAGAGCCGGAACCTCTTCTGCTGCCTGTACCGCTCCTGGTG
CCACAACCCGGTCACTACAGTGTCGCTGTGCTTCCTCACCCAGAACTACCGGCACGCCTA
CGACCTCATCCAGAAGTTCGGAGACCTGGAGGTCACCGTGGACTTCCTCACGGAGGTGGA
CAAGCTGGTGCAGCTGATCGAGTGCCCCATCTTCACATACCTGCGCCTGCAGCTTCTGGA
CGTGAAGAACAACCCGTACCTGATCAAGGCCCTGTACGGCCTGCTCATGCTGCTGCCCCA
GAGCAGCGCCTTCCAGCTGCTCTCCCACCGGCTCCAGTGCGTGCCCAACCCCGAGCTGCT
GCAGACGGAAGACGGTCTGAAGGCAGCCCCCAGGTCACAGAACGCAGACTCCCTGAGCAT
CGACTACGCAGAGCTGCTGCAGCACTTTGAGAGGGTCCAGAAGAAGCACCTGGAAGTGAG
GCACCAGCGGAGCGGGCGTGGGGATCACCTGGACCGGAGGGTTGTTCTCTGACAGGCCTG
GCATGGAGAAGGGCCCGGGAGTGGTCCCCTCTGCGCAGCGCCCGAGGACCTGCCTCCGGG
GCAAGGCTGGACCCAGCCACCAGCCTGGAGCAGGGTAGGGGGTGGAGGCTCTGTCCACCC
GAGCTCCTCTCACGGCCCAGCCCCCCAGGCCCCCGGCACAGGCAGCTGCACTCTGGTATT
CAGACAGAGCTGGCTTCCCACCAGGGTGGGCCTGCAGCCTCAGACACCCCCACTTTCTGG
ATTCAGGTTCTTTCTAACGCCCTCTTGTAAAAGAGCTTGACCTCAGCCCACCAGAGCTCT
GACCTCGTGCAGATGCGTGTGTACACAGGTGTGTACACATCTCCGTGCACACAGGGACCA
GCACAGAGGCCCATGTGAATGATGCACACCCCCTGCCCCAATAAAGAAATGACAGAAAAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGTCAGAGGCGCCTTCATCATCAGGCAGCTCTGCCTCCTGCTGAACGCGGAGAACATCTT
CCACTCGATGGCGGACATCCTGCTCCGGGAGGAGGACCTCAAGTTCGCCTCGACCATGGT
CCACACCCTCAACACCATCCTGCTCACGTCCACCGAGCTCTTCCAGCTGCGGAACCAGCT
CAAGGACCTGAGGACCCCGGAGAGCCGGAACCTCTTCTGCTGCCTGTACCGCTCCTGGTG
CCACAACCCGGTCACTACAGTGTCGCTGTGCTTCCTCACCCAGAACTACCGGCACGCCTA
CGACCTCATCCAGAAGTTCGGAGACCTGGAGGTCACCGTGGACTTCCTCACGGAGGTGGA
CAAGCTGGTGCAGCTGATCGAGTGCCCCATCTTCACATACCTGCGCCTGCAGCTTCTGGA
CGTGAAGAACAACCCGTACCTGATCAAGGCCCTGTACGGCCTGCTCATGCTGCTGCCCCA
GAGCAGCGCCTTCCAGCTGCTCTCCCACCGGCTCCAGTGCGTGCCCAACCCCGAGCTGCT
GCAGACGGAAGACGGTCTGAAGGCAGCCCCCAGGTCACAGAACGCAGACTCCCTGAGCAT
CGACTACGCAGAGCTGCTGCAGCACTTTGAGAGGGTCCAGAAGAAGCACCTGGAAGTGAG
GCACCAGCGGAGCGGGCGTGGGGATCACCTGGACCGGAGGGTTGTTCTCTGACAGGCCTG
GCATGGAGAAGGGCCCGGGAGTGGTCCCCTCTGCGCAGCGCCCGAGGACCTGCCTCCGGG
GCAAGGCTGGACCCAGCCACCAGCCTGGAGCAGGGTAGGGGGTGGAGGCTCTGTCCACCC
GAGCTCCTCTCACGGCCCAGCCCCCCAGGCCCCCGGCACAGGCAGCTGCACTCTGGTATT
CAGACAGAGCTGGCTTCCCACCAGGGTGGGCCTGCAGCCTCAGACACCCCCACTTTCTGG
ATTCAGGTTCTTTCTAACGCCCTCTTGTAAAAGAGCTTGACCTCAGCCCACCAGAGCTCT
GACCTCGTGCAGATGCGTGTGTACACAGGTGTGTACACATCTCCGTGCACACAGGGACCA
GCACAGAGGCCCATGTGAATGATGCACACCCCCTGCCCCAATAAAGAAATGACAGAAAAG

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|6807942|emb|CAB70724.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|6807942|emb|CAB70724.1|

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

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

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               22-140, - strand, RNAz p=0.639536
               

               
               669-760, - strand, RNAz p=0.686128
               

               
               993-1122, + strand, RNAz p=0.99112

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


               
               22-140, - strand, RNAz p=0.639536
               

               
               669-760, - strand, RNAz p=0.686128
               

               
               993-1122, + strand, RNAz p=0.99112

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_018052, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_018052, +

Aligned organism(s): 20 entry(ies)

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Aligned organism(s): 20 entry(ies)

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               22-200, gnl|bosTau2|chr18 (545462-545640)
               

               
               22-200, gnl|canFam2|chr5 (79650009-79650211)
               

               
               22-200, gnl|danRer3|chr25 (26633741-26633540)
               

               
               22-200, gnl|dasNov1|scaffold_226542 (767-572)
               

               
               22-200, gnl|fr1|chrUn (38745283-38745454)
               

               
               22-200, gnl|galGal2|chr11 (1616867-1616651)
               

               
               22-200, gnl|hg17|chr16 (69290035-69290236)
               

               
               22-200, gnl|Hg17|chr16 (69290218-69290040)
               

               
               22-200, gnl|mm7|chr8 (109310678-109310477)
               

               
               22-200, gnl|Mm7|chr8 (109310493-109310671)
               

               
               22-200, gnl|monDom2|scaffold_63 (9261443-9261235)
               

               
               22-200, gnl|oryCun1|scaffold_197322 (784-583)
               

               
               22-200, gnl|panTro1|chr18 (63641166-63641367)
               

               
               22-200, gnl|rheMac2|chr20 (71938615-71938414)
               

               
               22-200, gnl|rn3|chr19 (40634586-40634385)
               

               
               22-200, gnl|tetNig1|chr3 (11159427-11159598)
               

               
               22-200, gnl|xenTro1|scaffold_671 (264214-264405)
               


               
               550-1139, gnl|bosTau2|chr18 (553637-554243)
               

               
               550-1139, gnl|Hg17|chr16 (69279494-69278850)
               

               
               550-1139, gnl|Mm7|chr8 (109319985-109320569)

Aligned organism(s): 20 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


               
               22-200, gnl|bosTau2|chr18 (545462-545640)
               

               
               22-200, gnl|canFam2|chr5 (79650009-79650211)
               

               
               22-200, gnl|danRer3|chr25 (26633741-26633540)
               

               
               22-200, gnl|dasNov1|scaffold_226542 (767-572)
               

               
               22-200, gnl|fr1|chrUn (38745283-38745454)
               

               
               22-200, gnl|galGal2|chr11 (1616867-1616651)
               

               
               22-200, gnl|hg17|chr16 (69290035-69290236)
               

               
               22-200, gnl|Hg17|chr16 (69290218-69290040)
               

               
               22-200, gnl|mm7|chr8 (109310678-109310477)
               

               
               22-200, gnl|Mm7|chr8 (109310493-109310671)
               

               
               22-200, gnl|monDom2|scaffold_63 (9261443-9261235)
               

               
               22-200, gnl|oryCun1|scaffold_197322 (784-583)
               

               
               22-200, gnl|panTro1|chr18 (63641166-63641367)
               

               
               22-200, gnl|rheMac2|chr20 (71938615-71938414)
               

               
               22-200, gnl|rn3|chr19 (40634586-40634385)
               

               
               22-200, gnl|tetNig1|chr3 (11159427-11159598)
               

               
               22-200, gnl|xenTro1|scaffold_671 (264214-264405)
               


               
               550-1139, gnl|bosTau2|chr18 (553637-554243)
               

               
               550-1139, gnl|Hg17|chr16 (69279494-69278850)
               

               
               550-1139, gnl|Mm7|chr8 (109319985-109320569)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               csp (0.161186)
               

               
               pla (0.133672)
               

               
               ebs (0.118301)

Expressed library(ies): 3 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


               
               csp (0.161186)
               

               
               pla (0.133672)
               

               
               ebs (0.118301)

	22-140, - strand, RNAz p=0.639536
	669-760, - strand, RNAz p=0.686128
	993-1122, + strand, RNAz p=0.99112

	22-200, gnl\|bosTau2\|chr18 (545462-545640)
	22-200, gnl\|canFam2\|chr5 (79650009-79650211)
	22-200, gnl\|danRer3\|chr25 (26633741-26633540)
	22-200, gnl\|dasNov1\|scaffold_226542 (767-572)
	22-200, gnl\|fr1\|chrUn (38745283-38745454)
	22-200, gnl\|galGal2\|chr11 (1616867-1616651)
	22-200, gnl\|hg17\|chr16 (69290035-69290236)
	22-200, gnl\|Hg17\|chr16 (69290218-69290040)
	22-200, gnl\|mm7\|chr8 (109310678-109310477)
	22-200, gnl\|Mm7\|chr8 (109310493-109310671)
	22-200, gnl\|monDom2\|scaffold_63 (9261443-9261235)
	22-200, gnl\|oryCun1\|scaffold_197322 (784-583)
	22-200, gnl\|panTro1\|chr18 (63641166-63641367)
	22-200, gnl\|rheMac2\|chr20 (71938615-71938414)
	22-200, gnl\|rn3\|chr19 (40634586-40634385)
	22-200, gnl\|tetNig1\|chr3 (11159427-11159598)
	22-200, gnl\|xenTro1\|scaffold_671 (264214-264405)

	550-1139, gnl\|bosTau2\|chr18 (553637-554243)
	550-1139, gnl\|Hg17\|chr16 (69279494-69278850)
	550-1139, gnl\|Mm7\|chr8 (109319985-109320569)