Non-Coding RNA Search

Ss1.1-rmed34c_e22.5.5

Sequence:


               
               TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
TTTTTTCCGGCTTCATTCATTTTATTTTTCTCGTATAAAATTATGTGGTGGCCACAGCGG
GAGCCTGGGTCCTCTGCACAGAAACTCTGGTGTGGGTCTTCACAAGATGGTCAGTGAATT
CCTGATAAGGAGACTTGGTGAACACTGTCTCTTTCCAGAGATCAGGGGTGAGATAGCTGT
AGGTCTTGGAAATGGCGTCAAAGGTGGCCTTGGCGAAGTTGCCCAGGGTGGCAGTGCAGC
CCCTGGCAGAGGTGTAGCAGTCATCAATTCCTGCCATCATCAGCAGCTTCTTGGGCACAG
GGGCTGAGACAATGCCAGTGCCCCTGGGGGCAGGGATGAGGCGCACCAGCACGGAGCCAC
AGCGGCCAGTCACCTTGCAAGGGACGGTATGGGGCTTGCCGATCTTGTTCCCCCAGTAGC
CTCGCCGCACAGGGACAATGGAGAGTTTGGCCAGAATGATGGCCCCCCGGATGGCAGTGG
CTACCTCCTTAGAGCACTTGACACCCAAACCGACGTGCCCGTTGTAATCTCCAATGGCAA
CAAATGCCTTGAACCTGGTCCGCTGACCGGCACGGGTCTGCTTCTGCACCGGCATGATCT
TCAAAACCTCGTCCTTGAGGGATGCCCCCAAGAAAAAGTCAATGATCTCGGATTCCTTGA
TGGGCAGAGAGAAGAGATAGATCTCTTCCAGAGACTTGATCTTCATGTCTTTGACCAGGC
GGCCCAGCTTGGTGACGGGGAGCCACTCCTTGTCCTCGGCTTTGCCTCCGCGAGCTCCGC
GGCCTCGGCCCCGGCCCCGACCCCGGCCACGGCCCCGGCCTCGGACGCCGCTGCCAAAGC
CTCCGCGGAAGCCGCCGCGGCCTCCGATTCCAGGGCCCCCGGGGCCTCCAGGCCCTCCCG
CAGCACCGGCGTCATCCGCCATTTGCTGAAAAGAGCGACAAGAACCTGTCAGGGAGGCGC
TGGTACCTCCGGCCACCTCGGGCCGGGCTGCTGCCCCAGACCGCGGGCGCGCCAGCCCCG
GCTCGGCCCAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
TTTTTTCCGGCTTCATTCATTTTATTTTTCTCGTATAAAATTATGTGGTGGCCACAGCGG
GAGCCTGGGTCCTCTGCACAGAAACTCTGGTGTGGGTCTTCACAAGATGGTCAGTGAATT
CCTGATAAGGAGACTTGGTGAACACTGTCTCTTTCCAGAGATCAGGGGTGAGATAGCTGT
AGGTCTTGGAAATGGCGTCAAAGGTGGCCTTGGCGAAGTTGCCCAGGGTGGCAGTGCAGC
CCCTGGCAGAGGTGTAGCAGTCATCAATTCCTGCCATCATCAGCAGCTTCTTGGGCACAG
GGGCTGAGACAATGCCAGTGCCCCTGGGGGCAGGGATGAGGCGCACCAGCACGGAGCCAC
AGCGGCCAGTCACCTTGCAAGGGACGGTATGGGGCTTGCCGATCTTGTTCCCCCAGTAGC
CTCGCCGCACAGGGACAATGGAGAGTTTGGCCAGAATGATGGCCCCCCGGATGGCAGTGG
CTACCTCCTTAGAGCACTTGACACCCAAACCGACGTGCCCGTTGTAATCTCCAATGGCAA
CAAATGCCTTGAACCTGGTCCGCTGACCGGCACGGGTCTGCTTCTGCACCGGCATGATCT
TCAAAACCTCGTCCTTGAGGGATGCCCCCAAGAAAAAGTCAATGATCTCGGATTCCTTGA
TGGGCAGAGAGAAGAGATAGATCTCTTCCAGAGACTTGATCTTCATGTCTTTGACCAGGC
GGCCCAGCTTGGTGACGGGGAGCCACTCCTTGTCCTCGGCTTTGCCTCCGCGAGCTCCGC
GGCCTCGGCCCCGGCCCCGACCCCGGCCACGGCCCCGGCCTCGGACGCCGCTGCCAAAGC
CTCCGCGGAAGCCGCCGCGGCCTCCGATTCCAGGGCCCCCGGGGCCTCCAGGCCCTCCCG
CAGCACCGGCGTCATCCGCCATTTGCTGAAAAGAGCGACAAGAACCTGTCAGGGAGGCGC
TGGTACCTCCGGCCACCTCGGGCCGGGCTGCTGCCCCAGACCGCGGGCGCGCCAGCCCCG
GCTCGGCCCAAA

Coded protein: 1 entry(ies)

More info

Coded protein: 1 entry(ies)

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               gi|23491733|dbj|BAC16801.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|23491733|dbj|BAC16801.1|

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

More info

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

Help | Less info


               
               118-244, + strand, RNAz p=0.719321
               

               
               675-832, + strand, RNAz p=0.931643

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


               
               118-244, + strand, RNAz p=0.719321
               

               
               675-832, + strand, RNAz p=0.931643

Aligned organism(s): 9 entry(ies)

More info

Aligned organism(s): 9 entry(ies)

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               54-662, gnl|bosTau2|chr5 (27299845-27300445)
               

               
               54-662, gnl|Hg17|chr12 (117147544-117146929)
               

               
               54-662, gnl|Mm7|chr18 (61648459-61649080)
               


               
               56-643, gnl|bosTau2|chr13 (48444819-48444266)
               

               
               56-643, gnl|Hg17|chr17 (19289827-19290429)
               

               
               56-643, gnl|Mm7|chr6 (122733758-122733161)
               


               
               675-988, gnl|bosTau2|chr13 (48444263-48443960)
               

               
               675-988, gnl|Hg17|chr17 (19290449-19290763)
               

               
               675-988, gnl|Mm7|chr6 (122733129-122732816)

Aligned organism(s): 9 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


               
               54-662, gnl|bosTau2|chr5 (27299845-27300445)
               

               
               54-662, gnl|Hg17|chr12 (117147544-117146929)
               

               
               54-662, gnl|Mm7|chr18 (61648459-61649080)
               


               
               56-643, gnl|bosTau2|chr13 (48444819-48444266)
               

               
               56-643, gnl|Hg17|chr17 (19289827-19290429)
               

               
               56-643, gnl|Mm7|chr6 (122733758-122733161)
               


               
               675-988, gnl|bosTau2|chr13 (48444263-48443960)
               

               
               675-988, gnl|Hg17|chr17 (19290449-19290763)
               

               
               675-988, gnl|Mm7|chr6 (122733129-122732816)

Expressed library(ies): 75 entry(ies)

More info

Expressed library(ies): 75 entry(ies)

Help | Less info


               
               cag (7.40853)
               

               
               cov (6.87194)
               

               
               med (6.39386)
               

               
               ecc (5.98182)
               

               
               eje (5.83119)
               

               
               cly (5.54952)
               

               
               nep (5.33382)
               

               
               nco (5.01375)
               

               
               ese (4.55408)
               

               
               mcp (4.43686)
               

               
               ton (4.212)
               

               
               eep (4.04461)
               

               
               eru (3.96158)
               

               
               ebs (3.90394)
               

               
               csp (3.86847)
               

               
               nca (3.83247)
               

               
               nlu (3.64194)
               

               
               fty (3.51679)
               

               
               fcc (3.36234)
               

               
               lnt (3.27309)
               

               
               fli (3.24609)
               

               
               jca (3.19088)
               

               
               elu (3.08285)
               

               
               nmm (2.78884)
               

               
               hlv (2.78513)
               

               
               eli (2.73266)
               

               
               ill (2.63389)
               

               
               cli (2.5978)
               

               
               nms (2.5663)
               

               
               amn (2.50627)
               

               
               nje (2.4888)
               

               
               hyp (2.42822)
               

               
               nbm (2.28447)
               

               
               eye (2.21654)
               

               
               fce (2.17273)
               

               
               fhi (2.03493)
               

               
               jej (1.97844)
               

               
               cga (1.95367)
               

               
               pla (1.87141)
               

               
               ece (1.83444)
               

               
               col (1.75507)
               

               
               pty (1.71257)
               

               
               fbs (1.57812)
               

               
               duo (1.55521)
               

               
               mas (1.47213)
               

               
               ssp (1.08416)
               

               
               ute (0.929491)
               

               
               cut (0.849618)
               

               
               ste (0.811249)
               

               
               ctl (0.612276)
               

               
               pgl (0.592417)
               

               
               cst (0.560146)
               

               
               pro (0.512033)
               

               
               cki (0.495704)
               

               
               cty (0.41632)
               

               
               tes (0.415628)
               

               
               hea (0.408998)
               

               
               thg (0.380373)
               

               
               bla (0.373042)
               

               
               tra (0.369276)
               

               
               tbr (0.308356)
               

               
               sme (0.305437)
               

               
               fat (0.294855)
               

               
               lin (0.291206)
               

               
               clu (0.239292)
               

               
               ldo (0.194005)
               

               
               cmu (0.186393)
               

               
               sto (0.179824)
               

               
               sin (0.174948)
               

               
               cje (0.165235)
               

               
               lun (0.150489)
               

               
               spl (0.143184)
               

               
               ova (0.129132)
               

               
               sug (0.127291)
               

               
               cbl (0.114797)

Expressed library(ies): 75 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


               
               cag (7.40853)
               

               
               cov (6.87194)
               

               
               med (6.39386)
               

               
               ecc (5.98182)
               

               
               eje (5.83119)
               

               
               cly (5.54952)
               

               
               nep (5.33382)
               

               
               nco (5.01375)
               

               
               ese (4.55408)
               

               
               mcp (4.43686)
               

               
               ton (4.212)
               

               
               eep (4.04461)
               

               
               eru (3.96158)
               

               
               ebs (3.90394)
               

               
               csp (3.86847)
               

               
               nca (3.83247)
               

               
               nlu (3.64194)
               

               
               fty (3.51679)
               

               
               fcc (3.36234)
               

               
               lnt (3.27309)
               

               
               fli (3.24609)
               

               
               jca (3.19088)
               

               
               elu (3.08285)
               

               
               nmm (2.78884)
               

               
               hlv (2.78513)
               

               
               eli (2.73266)
               

               
               ill (2.63389)
               

               
               cli (2.5978)
               

               
               nms (2.5663)
               

               
               amn (2.50627)
               

               
               nje (2.4888)
               

               
               hyp (2.42822)
               

               
               nbm (2.28447)
               

               
               eye (2.21654)
               

               
               fce (2.17273)
               

               
               fhi (2.03493)
               

               
               jej (1.97844)
               

               
               cga (1.95367)
               

               
               pla (1.87141)
               

               
               ece (1.83444)
               

               
               col (1.75507)
               

               
               pty (1.71257)
               

               
               fbs (1.57812)
               

               
               duo (1.55521)
               

               
               mas (1.47213)
               

               
               ssp (1.08416)
               

               
               ute (0.929491)
               

               
               cut (0.849618)
               

               
               ste (0.811249)
               

               
               ctl (0.612276)
               

               
               pgl (0.592417)
               

               
               cst (0.560146)
               

               
               pro (0.512033)
               

               
               cki (0.495704)
               

               
               cty (0.41632)
               

               
               tes (0.415628)
               

               
               hea (0.408998)
               

               
               thg (0.380373)
               

               
               bla (0.373042)
               

               
               tra (0.369276)
               

               
               tbr (0.308356)
               

               
               sme (0.305437)
               

               
               fat (0.294855)
               

               
               lin (0.291206)
               

               
               clu (0.239292)
               

               
               ldo (0.194005)
               

               
               cmu (0.186393)
               

               
               sto (0.179824)
               

               
               sin (0.174948)
               

               
               cje (0.165235)
               

               
               lun (0.150489)
               

               
               spl (0.143184)
               

               
               ova (0.129132)
               

               
               sug (0.127291)
               

               
               cbl (0.114797)

	118-244, + strand, RNAz p=0.719321
	675-832, + strand, RNAz p=0.931643

	54-662, gnl\|bosTau2\|chr5 (27299845-27300445)
	54-662, gnl\|Hg17\|chr12 (117147544-117146929)
	54-662, gnl\|Mm7\|chr18 (61648459-61649080)

	56-643, gnl\|bosTau2\|chr13 (48444819-48444266)
	56-643, gnl\|Hg17\|chr17 (19289827-19290429)
	56-643, gnl\|Mm7\|chr6 (122733758-122733161)

	675-988, gnl\|bosTau2\|chr13 (48444263-48443960)
	675-988, gnl\|Hg17\|chr17 (19290449-19290763)
	675-988, gnl\|Mm7\|chr6 (122733129-122732816)

	cag (7.40853)
	cov (6.87194)
	med (6.39386)
	ecc (5.98182)
	eje (5.83119)
	cly (5.54952)
	nep (5.33382)
	nco (5.01375)
	ese (4.55408)
	mcp (4.43686)
	ton (4.212)
	eep (4.04461)
	eru (3.96158)
	ebs (3.90394)
	csp (3.86847)
	nca (3.83247)
	nlu (3.64194)
	fty (3.51679)
	fcc (3.36234)
	lnt (3.27309)
	fli (3.24609)
	jca (3.19088)
	elu (3.08285)
	nmm (2.78884)
	hlv (2.78513)
	eli (2.73266)
	ill (2.63389)
	cli (2.5978)
	nms (2.5663)
	amn (2.50627)
	nje (2.4888)
	hyp (2.42822)
	nbm (2.28447)
	eye (2.21654)
	fce (2.17273)
	fhi (2.03493)
	jej (1.97844)
	cga (1.95367)
	pla (1.87141)
	ece (1.83444)
	col (1.75507)
	pty (1.71257)
	fbs (1.57812)
	duo (1.55521)
	mas (1.47213)
	ssp (1.08416)
	ute (0.929491)
	cut (0.849618)
	ste (0.811249)
	ctl (0.612276)
	pgl (0.592417)
	cst (0.560146)
	pro (0.512033)
	cki (0.495704)
	cty (0.41632)
	tes (0.415628)
	hea (0.408998)
	thg (0.380373)
	bla (0.373042)
	tra (0.369276)
	tbr (0.308356)
	sme (0.305437)
	fat (0.294855)
	lin (0.291206)
	clu (0.239292)
	ldo (0.194005)
	cmu (0.186393)
	sto (0.179824)
	sin (0.174948)
	cje (0.165235)
	lun (0.150489)
	spl (0.143184)
	ova (0.129132)
	sug (0.127291)
	cbl (0.114797)