Non-Coding RNA Search

Ss1.1-rfat0123_o24.5

Sequence:


               
               TTTTGTTTTGTTTTTACCAAAAAATTAATTGCCTAGCTTGATCTCTCGCTTATTTGACCA
AACTTGTGGCCAAATGACATTTAACTGTTTCCAGTATTTACATCCATCTTCTGTAGACAA
ATATTTGCCACCAGCGAGGGACGTGTCACCACCCCGAGGGTTCAAGCGGGAGATCCTGAC
ACATTTTTAAGCCCCGAATGCAGAGGTTCCTCTGAGTATCCAGGTTCGCAGCAGACCACT
TTGAAGGGAACAGCGGTCAGGTGCAAAAGCTAAGGAGCGTTTATGTACATATTAGCGTCA
CTTTCTGAGTAACCGGCTGTCTTCCCGGGCTGAGTCGTGGCCTGTGCTGTATAGCGACAC
CTTCCTGCTCAACAGACACATTTCCATTTGCAGCGTTATTTCCTTCCACCTGCACTTCCA
CCCTTCCAGCCGTCTTTTGAATGCTGCCTTCCTCCCCCCGCCACCCCCCACCCCCCGCCT
GCATGCTGAGGGACAGTAGAAACCGTTCATTATATAGATCATATAGATATTAGATATGGG
CTCTATGGCCACAGTTCATTCCCAGCCCTATTTTTGAAAATGTTAATATTTGGTAAATGC
CTTCATATTATGTAAAAATTCAGACATTGCAAAAGGGTGTGTGCCTTCCTCCTTGAGTTC
TCTGGTTCCACTTTGCCAAAGCCCGTGGGGGTCCAGTCTCTCGAGTATCCTTCTGGTTAC
CGGCTGTGCATGGGCAAGCTTACCTATATACACCCTCTACTCTATTTACACATGTGTGGG
ATGTTATACTCACTGCTTTTTTTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTTGTTTTGTTTTTACCAAAAAATTAATTGCCTAGCTTGATCTCTCGCTTATTTGACCA
AACTTGTGGCCAAATGACATTTAACTGTTTCCAGTATTTACATCCATCTTCTGTAGACAA
ATATTTGCCACCAGCGAGGGACGTGTCACCACCCCGAGGGTTCAAGCGGGAGATCCTGAC
ACATTTTTAAGCCCCGAATGCAGAGGTTCCTCTGAGTATCCAGGTTCGCAGCAGACCACT
TTGAAGGGAACAGCGGTCAGGTGCAAAAGCTAAGGAGCGTTTATGTACATATTAGCGTCA
CTTTCTGAGTAACCGGCTGTCTTCCCGGGCTGAGTCGTGGCCTGTGCTGTATAGCGACAC
CTTCCTGCTCAACAGACACATTTCCATTTGCAGCGTTATTTCCTTCCACCTGCACTTCCA
CCCTTCCAGCCGTCTTTTGAATGCTGCCTTCCTCCCCCCGCCACCCCCCACCCCCCGCCT
GCATGCTGAGGGACAGTAGAAACCGTTCATTATATAGATCATATAGATATTAGATATGGG
CTCTATGGCCACAGTTCATTCCCAGCCCTATTTTTGAAAATGTTAATATTTGGTAAATGC
CTTCATATTATGTAAAAATTCAGACATTGCAAAAGGGTGTGTGCCTTCCTCCTTGAGTTC
TCTGGTTCCACTTTGCCAAAGCCCGTGGGGGTCCAGTCTCTCGAGTATCCTTCTGGTTAC
CGGCTGTGCATGGGCAAGCTTACCTATATACACCCTCTACTCTATTTACACATGTGTGGG
ATGTTATACTCACTGCTTTTTTTT

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

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

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               3-159, - strand, RNAz p=0.999774
               

               
               286-389, - strand, RNAz p=0.608618
               

               
               686-801, + strand, RNAz p=0.989761

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


               
               3-159, - strand, RNAz p=0.999774
               

               
               286-389, - strand, RNAz p=0.608618
               

               
               686-801, + strand, RNAz p=0.989761

Similar Transcript(s): 5 entry(ies)

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Similar Transcript(s): 5 entry(ies)

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               6-152, 189672 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BE721838.1|), 
blast E-value=2e-28, identity=87.07% 
               

               
               41-152, 463341 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI682299.1|), 
blast E-value=8e-22, identity=87.5% 
               

               
               6-152, CES014272 Bos taurus muscle cDNA library Bos taurus cDNA clone 
(gb|CO729220.1|), blast E-value=8e-22, identity=84.35% 
               

               
               3-159, PADT0811027_D11F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB421803.1|), blast E-value=0, identity=99.37% 
               

               
               3-159, PADT0811027_D11R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB421804.1|), blast E-value=0, identity=100%

Similar Transcript(s): 5 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


               
               6-152, 189672 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BE721838.1|), 
blast E-value=2e-28, identity=87.07% 
               

               
               41-152, 463341 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI682299.1|), 
blast E-value=8e-22, identity=87.5% 
               

               
               6-152, CES014272 Bos taurus muscle cDNA library Bos taurus cDNA clone 
(gb|CO729220.1|), blast E-value=8e-22, identity=84.35% 
               

               
               3-159, PADT0811027_D11F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB421803.1|), blast E-value=0, identity=99.37% 
               

               
               3-159, PADT0811027_D11R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB421804.1|), blast E-value=0, identity=100%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_002666, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_002666, +

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               3-255, gnl|bosTau2|chr21 (15562313-15562564)
               

               
               3-255, gnl|Hg17|chr15 (88009559-88009282)
               


               
               286-446, gnl|bosTau2|chr21 (15562779-15562936)
               

               
               286-446, gnl|canFam2|chr3 (55519634-55519827)
               

               
               286-446, gnl|dasNov1|scaffold_137188 (1012-810)
               

               
               286-446, gnl|hg17|chr15 (88009071-88009251)
               

               
               286-446, gnl|Hg17|chr15 (88009250-88009105)
               

               
               286-446, gnl|loxAfr1|scaffold_6625 (831-615)
               

               
               286-446, gnl|oryCun1|scaffold_196554 (42305-42469)
               

               
               286-446, gnl|panTro1|chr16 (88940770-88940950)
               

               
               286-446, gnl|rheMac2|chr7 (69292723-69292912)
               

               
               286-446, gnl|rn3|chr1 (135575329-135575514)
               


               
               536-801, gnl|bosTau2|chr21 (15563210-15563478)
               

               
               536-801, gnl|Hg17|chr15 (88009069-88008808)

Aligned organism(s): 14 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


               
               3-255, gnl|bosTau2|chr21 (15562313-15562564)
               

               
               3-255, gnl|Hg17|chr15 (88009559-88009282)
               


               
               286-446, gnl|bosTau2|chr21 (15562779-15562936)
               

               
               286-446, gnl|canFam2|chr3 (55519634-55519827)
               

               
               286-446, gnl|dasNov1|scaffold_137188 (1012-810)
               

               
               286-446, gnl|hg17|chr15 (88009071-88009251)
               

               
               286-446, gnl|Hg17|chr15 (88009250-88009105)
               

               
               286-446, gnl|loxAfr1|scaffold_6625 (831-615)
               

               
               286-446, gnl|oryCun1|scaffold_196554 (42305-42469)
               

               
               286-446, gnl|panTro1|chr16 (88940770-88940950)
               

               
               286-446, gnl|rheMac2|chr7 (69292723-69292912)
               

               
               286-446, gnl|rn3|chr1 (135575329-135575514)
               


               
               536-801, gnl|bosTau2|chr21 (15563210-15563478)
               

               
               536-801, gnl|Hg17|chr15 (88009069-88008808)

Expressed library(ies): 7 entry(ies)

More info

Expressed library(ies): 7 entry(ies)

Help | Less info


               
               fat (0.884564)
               

               
               med (0.232504)
               

               
               nep (0.183925)
               

               
               cli (0.152812)
               

               
               cag (0.151194)
               

               
               bfe (0.149858)
               

               
               cly (0.120642)

Expressed library(ies): 7 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


               
               fat (0.884564)
               

               
               med (0.232504)
               

               
               nep (0.183925)
               

               
               cli (0.152812)
               

               
               cag (0.151194)
               

               
               bfe (0.149858)
               

               
               cly (0.120642)

	3-159, - strand, RNAz p=0.999774
	286-389, - strand, RNAz p=0.608618
	686-801, + strand, RNAz p=0.989761

	6-152, 189672 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE721838.1\|), blast E-value=2e-28, identity=87.07%
	41-152, 463341 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI682299.1\|), blast E-value=8e-22, identity=87.5%
	6-152, CES014272 Bos taurus muscle cDNA library Bos taurus cDNA clone (gb\|CO729220.1\|), blast E-value=8e-22, identity=84.35%
	3-159, PADT0811027_D11F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB421803.1\|), blast E-value=0, identity=99.37%
	3-159, PADT0811027_D11R porcine adipose tissue cDNA library (PADT) Sus (gb\|EB421804.1\|), blast E-value=0, identity=100%

	3-255, gnl\|bosTau2\|chr21 (15562313-15562564)
	3-255, gnl\|Hg17\|chr15 (88009559-88009282)

	286-446, gnl\|bosTau2\|chr21 (15562779-15562936)
	286-446, gnl\|canFam2\|chr3 (55519634-55519827)
	286-446, gnl\|dasNov1\|scaffold_137188 (1012-810)
	286-446, gnl\|hg17\|chr15 (88009071-88009251)
	286-446, gnl\|Hg17\|chr15 (88009250-88009105)
	286-446, gnl\|loxAfr1\|scaffold_6625 (831-615)
	286-446, gnl\|oryCun1\|scaffold_196554 (42305-42469)
	286-446, gnl\|panTro1\|chr16 (88940770-88940950)
	286-446, gnl\|rheMac2\|chr7 (69292723-69292912)
	286-446, gnl\|rn3\|chr1 (135575329-135575514)

	536-801, gnl\|bosTau2\|chr21 (15563210-15563478)
	536-801, gnl\|Hg17\|chr15 (88009069-88008808)

	fat (0.884564)
	med (0.232504)
	nep (0.183925)
	cli (0.152812)
	cag (0.151194)
	bfe (0.149858)
	cly (0.120642)