Non-Coding RNA Search

Ss1.1-Pig4-TMW8064A15.3

Sequence:


               
               GCCTAGTCCTTTCTCCCCCACCCATGACAAATGGACCACTCCAATAAGCCAGCGTCCTCC
CCCGGGGTGGAATGGATTAATCCTATACCCCCTTTTCCAGAGCAAGAAATGAATTCTTCC
AGTGTCACCTGGGGCACTTTGGAGGAATCCAAGGCTGTGGGGAAGGGAGGGAAACCAGCT
TGGAGCTAGGCAGTCCTCGTTATCTCGGGAGGCGAAATCCTAGGGCAGACGGTTAAGGAT
CGGAGAAACACTGGGGGGAGGAACTGGGCGTGTGTGAGTGTGTGTGTGCACGCGCGCGCG
CGCTTCCCAGGCACGACTTGCGCACACACTTGCTCTTTGCAGGCTGAGCTGCTGTTCTTT
TTCTCTCCAGGCCAGACTTCTGGAAGTTCCCGGGCAGAGGGCGTTTCTGTCCGGACCTAT
TCCTGCTAGTGTGGGCCTCCAGGTGACCTCACTCCGACGGAAGAACCTTTCTGAGGCTGG
GCTGCTCCCCCTCCTGCCCAGAGTCTGGTCTCGCCAGGAGAGAGCCTGCGGGGGAGCTCG
CGCCGCGGACTGGACCTTCTGTACAGATAAGCGGGGAGTGCGCGTCCCCGCCTCACAAAT
GGACTGGGCCTGGACCAAACCACATGCACTGGACTGGGAGGGGGAAAGAAAAGGGCAGGA
AGAAGTCCCGCCCCAAACTTCCGCCTCCCTTTCCTCTACTTTGTAATTTATTGATCAGTT
TCCAGTGGGAGACGGGTGCCCTTTCCCCGCGGGAAGGGGGCGGGGCTTCCCTCCCAGGCC
GCATGCGTGGAGAGGCTGCCCCCCCCTTCTTCCGGGTCGCGGGGCCCAAGTCTTCCTTCT
TCATCCGAAAGGAGAGGAGGGGGGACTCGCTGCTAAAAGCCTCGTCCCTTGTGCCACTCA
GCCCTGCCCCGCCGCTTCCAGTCGCCGGTGCCTGGGGTCAGCTGCGGGCGGGGTTCCCTC
TCCCAGTGTCTCGTGTCCCGGAGGCCCTTCCCCACCCCCCGTGCTGTGGCCGTGTCCGTG
CCCCGGGGGTGGGGGGTGCCGAACTGCGCTCCCCGTTCCGCTCCGGCTCCGGGGTTTGCA
TGGGAGAATCCTCTTTCCACGATGCCACTGGGCGACGTGGCACGGGGGGAGGAAGGACCG
TGGGGGAGCCCTCGCCCCCGACTCTTGATCGGCCTCCCTGCCCCAAGCGTCACTCAGTGA
TCACGGGTAAAGAGAACTATTTCA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCCTAGTCCTTTCTCCCCCACCCATGACAAATGGACCACTCCAATAAGCCAGCGTCCTCC
CCCGGGGTGGAATGGATTAATCCTATACCCCCTTTTCCAGAGCAAGAAATGAATTCTTCC
AGTGTCACCTGGGGCACTTTGGAGGAATCCAAGGCTGTGGGGAAGGGAGGGAAACCAGCT
TGGAGCTAGGCAGTCCTCGTTATCTCGGGAGGCGAAATCCTAGGGCAGACGGTTAAGGAT
CGGAGAAACACTGGGGGGAGGAACTGGGCGTGTGTGAGTGTGTGTGTGCACGCGCGCGCG
CGCTTCCCAGGCACGACTTGCGCACACACTTGCTCTTTGCAGGCTGAGCTGCTGTTCTTT
TTCTCTCCAGGCCAGACTTCTGGAAGTTCCCGGGCAGAGGGCGTTTCTGTCCGGACCTAT
TCCTGCTAGTGTGGGCCTCCAGGTGACCTCACTCCGACGGAAGAACCTTTCTGAGGCTGG
GCTGCTCCCCCTCCTGCCCAGAGTCTGGTCTCGCCAGGAGAGAGCCTGCGGGGGAGCTCG
CGCCGCGGACTGGACCTTCTGTACAGATAAGCGGGGAGTGCGCGTCCCCGCCTCACAAAT
GGACTGGGCCTGGACCAAACCACATGCACTGGACTGGGAGGGGGAAAGAAAAGGGCAGGA
AGAAGTCCCGCCCCAAACTTCCGCCTCCCTTTCCTCTACTTTGTAATTTATTGATCAGTT
TCCAGTGGGAGACGGGTGCCCTTTCCCCGCGGGAAGGGGGCGGGGCTTCCCTCCCAGGCC
GCATGCGTGGAGAGGCTGCCCCCCCCTTCTTCCGGGTCGCGGGGCCCAAGTCTTCCTTCT
TCATCCGAAAGGAGAGGAGGGGGGACTCGCTGCTAAAAGCCTCGTCCCTTGTGCCACTCA
GCCCTGCCCCGCCGCTTCCAGTCGCCGGTGCCTGGGGTCAGCTGCGGGCGGGGTTCCCTC
TCCCAGTGTCTCGTGTCCCGGAGGCCCTTCCCCACCCCCCGTGCTGTGGCCGTGTCCGTG
CCCCGGGGGTGGGGGGTGCCGAACTGCGCTCCCCGTTCCGCTCCGGCTCCGGGGTTTGCA
TGGGAGAATCCTCTTTCCACGATGCCACTGGGCGACGTGGCACGGGGGGAGGAAGGACCG
TGGGGGAGCCCTCGCCCCCGACTCTTGATCGGCCTCCCTGCCCCAAGCGTCACTCAGTGA
TCACGGGTAAAGAGAACTATTTCA

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               81-193, + strand, RNAz p=0.957933
               

               
               594-888, + strand, RNAz p=0.999566

Predicted RNA structure(s): 2 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


               
               81-193, + strand, RNAz p=0.957933
               

               
               594-888, + strand, RNAz p=0.999566

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               594-888, BP172739 full-length enriched swine cDNA library, adult uterus Sus 
(dbj|BP172739.1|), blast E-value=0, identity=97.29% 
               

               
               594-888, BP172740 full-length enriched swine cDNA library, adult uterus Sus 
(dbj|BP172740.1|), blast E-value=0, identity=97.29% 
               

               
               594-872, CJ000292 full-length enriched swine cDNA library, adult liver Sus 
(dbj|CJ000292.1|), blast E-value=0, identity=96.07% 
               

               
               594-854, CJ029675 full-length enriched swine cDNA library, adult trachea Sus 
(dbj|CJ029675.1|), blast E-value=0, identity=96.93% 
               

               
               594-846, CJ029677 full-length enriched swine cDNA library, adult trachea Sus 
(dbj|CJ029677.1|), blast E-value=0, identity=96.84% 
               

               
               594-888, DB819381 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819381.1|), blast E-value=0, identity=96.95%

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


               
               594-888, BP172739 full-length enriched swine cDNA library, adult uterus Sus 
(dbj|BP172739.1|), blast E-value=0, identity=97.29% 
               

               
               594-888, BP172740 full-length enriched swine cDNA library, adult uterus Sus 
(dbj|BP172740.1|), blast E-value=0, identity=97.29% 
               

               
               594-872, CJ000292 full-length enriched swine cDNA library, adult liver Sus 
(dbj|CJ000292.1|), blast E-value=0, identity=96.07% 
               

               
               594-854, CJ029675 full-length enriched swine cDNA library, adult trachea Sus 
(dbj|CJ029675.1|), blast E-value=0, identity=96.93% 
               

               
               594-846, CJ029677 full-length enriched swine cDNA library, adult trachea Sus 
(dbj|CJ029677.1|), blast E-value=0, identity=96.84% 
               

               
               594-888, DB819381 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819381.1|), blast E-value=0, identity=96.95%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_003660, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_003660, +

Aligned organism(s): 5 entry(ies)

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Aligned organism(s): 5 entry(ies)

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               3-288, gnl|bosTau2|chr18 (48273106-48273401)
               

               
               3-288, gnl|Hg17|chr19 (54344874-54345112)
               


               
               440-1224, gnl|bosTau2|chr18 (48273701-48274490)
               

               
               440-1224, gnl|Hg17|chr19 (54345302-54346091)
               

               
               440-1224, gnl|Mm7|chr7 (41515812-41515007)

Aligned organism(s): 5 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


               
               3-288, gnl|bosTau2|chr18 (48273106-48273401)
               

               
               3-288, gnl|Hg17|chr19 (54344874-54345112)
               


               
               440-1224, gnl|bosTau2|chr18 (48273701-48274490)
               

               
               440-1224, gnl|Hg17|chr19 (54345302-54346091)
               

               
               440-1224, gnl|Mm7|chr7 (41515812-41515007)

Expressed library(ies): 9 entry(ies)

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Expressed library(ies): 9 entry(ies)

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               nmm (0.265604)
               

               
               fcc (0.197785)
               

               
               cmu (0.186393)
               

               
               nep (0.183925)
               

               
               mcp (0.170648)
               

               
               nje (0.16592)
               

               
               pla (0.133672)
               

               
               med (0.116252)
               

               
               ecc (0.115035)

Expressed library(ies): 9 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


               
               nmm (0.265604)
               

               
               fcc (0.197785)
               

               
               cmu (0.186393)
               

               
               nep (0.183925)
               

               
               mcp (0.170648)
               

               
               nje (0.16592)
               

               
               pla (0.133672)
               

               
               med (0.116252)
               

               
               ecc (0.115035)

	81-193, + strand, RNAz p=0.957933
	594-888, + strand, RNAz p=0.999566

	594-888, BP172739 full-length enriched swine cDNA library, adult uterus Sus (dbj\|BP172739.1\|), blast E-value=0, identity=97.29%
	594-888, BP172740 full-length enriched swine cDNA library, adult uterus Sus (dbj\|BP172740.1\|), blast E-value=0, identity=97.29%
	594-872, CJ000292 full-length enriched swine cDNA library, adult liver Sus (dbj\|CJ000292.1\|), blast E-value=0, identity=96.07%
	594-854, CJ029675 full-length enriched swine cDNA library, adult trachea Sus (dbj\|CJ029675.1\|), blast E-value=0, identity=96.93%
	594-846, CJ029677 full-length enriched swine cDNA library, adult trachea Sus (dbj\|CJ029677.1\|), blast E-value=0, identity=96.84%
	594-888, DB819381 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB819381.1\|), blast E-value=0, identity=96.95%

	3-288, gnl\|bosTau2\|chr18 (48273106-48273401)
	3-288, gnl\|Hg17\|chr19 (54344874-54345112)

	440-1224, gnl\|bosTau2\|chr18 (48273701-48274490)
	440-1224, gnl\|Hg17\|chr19 (54345302-54346091)
	440-1224, gnl\|Mm7\|chr7 (41515812-41515007)

	nmm (0.265604)
	fcc (0.197785)
	cmu (0.186393)
	nep (0.183925)
	mcp (0.170648)
	nje (0.16592)
	pla (0.133672)
	med (0.116252)
	ecc (0.115035)