Non-Coding RNA Search

Ss1.1-Mixc-0040,i12.5

Sequence:


               
               TTTAAATGAGTTTAAAGATTGTGTTCAGAGAGTAAATGTTATATCCATTTAATGATTACA
GTATTATTTTGAACCTTTTAAATAGGGTTCCCAGCCTGGGTTTCTAAAAAACCAAATATG
CCGGCCAGAGTGTGGGGAGGAGGGATGCCTGGCATGCAGCCCCTCTTCCTGTGTCCTTGG
GGCCATGCGGTGTAGTGCCCGATCCTGGAAGCATGAGACCTTAGCCAGTTACTTCGACAC
CAAGGCCCTCGTTCCCTCCGTCCCCTGGGGTGGGGCTCTTCCCTAAAACTGTTTGCACAT
GGCCGGGGGAGGGAACGAGAGCTCTTGTGTCCTGTGTCTGAGCCTTACGGAGTGCAGGAC
AGTGTCATTTGAGGGCGTGTCCCACTCCATCAAGTAGGACGGCAAACCCCACATGTCTTT
AAATTATGTTCCTTTGATTTCTATTCACTTAGTTTTAGGGATTCTTTCATTTGTTTTTAA
AGAGAAACGTTTATAACTGGATAGCGTTGCCGTGAAAGCAGCCCGGATGTTGGCGCTAGG
GCCAGCTGTTGATACTGCTCTTTCAAGACAGCCTCCCTGTTTGGATCGGCACTAGGGAAG
AAACAAGCCTTTAAGCTGAAAAAGATCAAAAAGATCCCAAACCTGGTGAAATACGCCAGC
CTTTGCAAAGCGGGTGAGTCCGCAGAGACTGACCCATGAGTGGCTTTACGGACGCTGAGA
TAGAGAAGGTCTAAGTGTAGCAACCACCTGCTCACAGCTGCTATTAACCCCAGAAGGACT
GAGATGACCCCTCCGCTCTATTTTTGTGTTGTTTTTGCACAGACTCCGGAAAAGTGAAGG
CTGCCAATCCGAGTAGTACTCAGATGTGAGGAACTGCTGGTCTTGGATTTTTTTTCCATT
AAATTCAGCTGATCATATTGATCAGTAGGTAAACGTAAATAGCTTCCAATTTTACAAGTC
AAATTGCAGTGTTTTTTCACTGTATCAAAAAATGTCAGTGCTTTATTTAATAATTCTCTT
CTGTATCATGGCATTTGTCTACTTGCTTATATATTACATTGTCAATGAGGCATTTGTAAT
TTTACATGTAATATGCATTCTTTGCCAGTTTTCTGATATAGGCTATGGACCTCATGTGCA
TATAGAAAGACAGAAATCTAGCTCAACACAGTTGCACAAATGTTATCTAAGCATTAAGTA
ATCGTAGAACATAGGACTGTAACCTCAGTTCGCTCTGTGACGTCAAGTGCAGAATGTACA
ATTAACTGGTGATTTCCTCATACTTTTGATACTACTTGTACCTGTATGTCTTTTAGAAAG
ACATTGGTGGAGTCTGTATCCCTTTTGTATTTTTAATACAATAATTGTACATATTGGTTA
TATTTTTGTTGAAAATGGTAGAAATGTACTATGTTTATGCTTCTACATCCAGTTTGTACA
AGCTGGAAAATAAATAAATATAACAGACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTAAATGAGTTTAAAGATTGTGTTCAGAGAGTAAATGTTATATCCATTTAATGATTACA
GTATTATTTTGAACCTTTTAAATAGGGTTCCCAGCCTGGGTTTCTAAAAAACCAAATATG
CCGGCCAGAGTGTGGGGAGGAGGGATGCCTGGCATGCAGCCCCTCTTCCTGTGTCCTTGG
GGCCATGCGGTGTAGTGCCCGATCCTGGAAGCATGAGACCTTAGCCAGTTACTTCGACAC
CAAGGCCCTCGTTCCCTCCGTCCCCTGGGGTGGGGCTCTTCCCTAAAACTGTTTGCACAT
GGCCGGGGGAGGGAACGAGAGCTCTTGTGTCCTGTGTCTGAGCCTTACGGAGTGCAGGAC
AGTGTCATTTGAGGGCGTGTCCCACTCCATCAAGTAGGACGGCAAACCCCACATGTCTTT
AAATTATGTTCCTTTGATTTCTATTCACTTAGTTTTAGGGATTCTTTCATTTGTTTTTAA
AGAGAAACGTTTATAACTGGATAGCGTTGCCGTGAAAGCAGCCCGGATGTTGGCGCTAGG
GCCAGCTGTTGATACTGCTCTTTCAAGACAGCCTCCCTGTTTGGATCGGCACTAGGGAAG
AAACAAGCCTTTAAGCTGAAAAAGATCAAAAAGATCCCAAACCTGGTGAAATACGCCAGC
CTTTGCAAAGCGGGTGAGTCCGCAGAGACTGACCCATGAGTGGCTTTACGGACGCTGAGA
TAGAGAAGGTCTAAGTGTAGCAACCACCTGCTCACAGCTGCTATTAACCCCAGAAGGACT
GAGATGACCCCTCCGCTCTATTTTTGTGTTGTTTTTGCACAGACTCCGGAAAAGTGAAGG
CTGCCAATCCGAGTAGTACTCAGATGTGAGGAACTGCTGGTCTTGGATTTTTTTTCCATT
AAATTCAGCTGATCATATTGATCAGTAGGTAAACGTAAATAGCTTCCAATTTTACAAGTC
AAATTGCAGTGTTTTTTCACTGTATCAAAAAATGTCAGTGCTTTATTTAATAATTCTCTT
CTGTATCATGGCATTTGTCTACTTGCTTATATATTACATTGTCAATGAGGCATTTGTAAT
TTTACATGTAATATGCATTCTTTGCCAGTTTTCTGATATAGGCTATGGACCTCATGTGCA
TATAGAAAGACAGAAATCTAGCTCAACACAGTTGCACAAATGTTATCTAAGCATTAAGTA
ATCGTAGAACATAGGACTGTAACCTCAGTTCGCTCTGTGACGTCAAGTGCAGAATGTACA
ATTAACTGGTGATTTCCTCATACTTTTGATACTACTTGTACCTGTATGTCTTTTAGAAAG
ACATTGGTGGAGTCTGTATCCCTTTTGTATTTTTAATACAATAATTGTACATATTGGTTA
TATTTTTGTTGAAAATGGTAGAAATGTACTATGTTTATGCTTCTACATCCAGTTTGTACA
AGCTGGAAAATAAATAAATATAACAGACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

Help | Less info


               
               376-479, - strand, RNAz p=0.703488
               

               
               804-963, - strand, RNAz p=0.923481
               

               
               1240-1399, + strand, RNAz p=0.968524

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


               
               376-479, - strand, RNAz p=0.703488
               

               
               804-963, - strand, RNAz p=0.923481
               

               
               1240-1399, + strand, RNAz p=0.968524

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               1242-1399, AM006028 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone 
(emb|AM006028.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, AM006776 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone 
(emb|AM006776.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, Hw_Fat_1_050801_G06 Bos taurus CF-24-HW fat cDNA library Bos taurus 
(gb|DV775888.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, 1605854 MARC 11BOV Bos taurus cDNA 3', mRNA sequence 
(gb|DY465383.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, LB01820.CR_B08 GC_BGC-18 Bos taurus cDNA clone IMAGE 
(gb|EE223362.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, LB0238.CR_C16 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb|EE251902.1|), 
blast E-value=0, identity=100%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               1242-1399, AM006028 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone 
(emb|AM006028.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, AM006776 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone 
(emb|AM006776.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, Hw_Fat_1_050801_G06 Bos taurus CF-24-HW fat cDNA library Bos taurus 
(gb|DV775888.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, 1605854 MARC 11BOV Bos taurus cDNA 3', mRNA sequence 
(gb|DY465383.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, LB01820.CR_B08 GC_BGC-18 Bos taurus cDNA clone IMAGE 
(gb|EE223362.1|), blast E-value=0, identity=100% 
               

               
               1242-1399, LB0238.CR_C16 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb|EE251902.1|), 
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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               3' of AB002311, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of AB002311, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1468, gnl|bosTau2|chr17 (21315688-21317155)
               

               
               1-1468, gnl|Hg17|chr4 (160637427-160638906)
               

               
               1-1468, gnl|Mm7|chr3 (79169063-79167563)

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


               
               1-1468, gnl|bosTau2|chr17 (21315688-21317155)
               

               
               1-1468, gnl|Hg17|chr4 (160637427-160638906)
               

               
               1-1468, gnl|Mm7|chr3 (79169063-79167563)

Expressed library(ies): 21 entry(ies)

More info

Expressed library(ies): 21 entry(ies)

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               amn (0.417711)
               

               
               elu (0.385356)
               

               
               bfe (0.299715)
               

               
               sug (0.254582)
               

               
               thg (0.253582)
               

               
               ece (0.229305)
               

               
               fli (0.202881)
               

               
               gul (0.177588)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               sin (0.174948)
               

               
               cut (0.169924)
               

               
               lnt (0.142308)
               

               
               pla (0.133672)
               

               
               kid (0.129735)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               cbl (0.114797)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               ldo (0.0970026)

Expressed library(ies): 21 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


               
               amn (0.417711)
               

               
               elu (0.385356)
               

               
               bfe (0.299715)
               

               
               sug (0.254582)
               

               
               thg (0.253582)
               

               
               ece (0.229305)
               

               
               fli (0.202881)
               

               
               gul (0.177588)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               sin (0.174948)
               

               
               cut (0.169924)
               

               
               lnt (0.142308)
               

               
               pla (0.133672)
               

               
               kid (0.129735)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               cbl (0.114797)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               ldo (0.0970026)

	376-479, - strand, RNAz p=0.703488
	804-963, - strand, RNAz p=0.923481
	1240-1399, + strand, RNAz p=0.968524

	1242-1399, AM006028 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone (emb\|AM006028.1\|), blast E-value=0, identity=100%
	1242-1399, AM006776 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone (emb\|AM006776.1\|), blast E-value=0, identity=100%
	1242-1399, Hw_Fat_1_050801_G06 Bos taurus CF-24-HW fat cDNA library Bos taurus (gb\|DV775888.1\|), blast E-value=0, identity=100%
	1242-1399, 1605854 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY465383.1\|), blast E-value=0, identity=100%
	1242-1399, LB01820.CR_B08 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb\|EE223362.1\|), blast E-value=0, identity=100%
	1242-1399, LB0238.CR_C16 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb\|EE251902.1\|), blast E-value=0, identity=100%

	1-1468, gnl\|bosTau2\|chr17 (21315688-21317155)
	1-1468, gnl\|Hg17\|chr4 (160637427-160638906)
	1-1468, gnl\|Mm7\|chr3 (79169063-79167563)

	amn (0.417711)
	elu (0.385356)
	bfe (0.299715)
	sug (0.254582)
	thg (0.253582)
	ece (0.229305)
	fli (0.202881)
	gul (0.177588)
	fty (0.17584)
	ton (0.1755)
	sin (0.174948)
	cut (0.169924)
	lnt (0.142308)
	pla (0.133672)
	kid (0.129735)
	ebs (0.118301)
	ecc (0.115035)
	cbl (0.114797)
	spc (0.113366)
	cty (0.10408)
	ldo (0.0970026)