Non-Coding RNA Search

Ss1.1-recc2834c_f22.5

Sequence:


               
               GACCTCGCCCGTCCTTTCTGGATTTCGGCTCGGTGTCCGCTGTGCTGCGGGTGCTAAGGT
CCTAAGTCATGGGTGTCGCCGTTCGAGTCGTCTATTGTGGCGCTTGAGGCTACAAGTCCA
AGTATCTTCAACTCAAGAAGAAGTTAGAAGATGAGTTCCCTGGACGCCTGGACATCTGTG
GCGAGGGGACTCCCCAGGTCACCGGGTTCTTCGAAGTATTGGTAGCAGGGAAGTTGGTTC
ACTCCAAGAAGGGAGGTGATGGCTACGTGGATACGGAGAGCAAGTTTCTGAAGTTGGTGG
CTGCCATCAAAGCTGCTTTGGCTCAGGGCTAATGTGCCCTGAAGGCAGAGTCCAGTGACC
TTGGCCCAGCTCCTCTCGGCAGACGCTTCATGACAGGAAGGACTGAAATGTCTTGTGGAC
GCCTGGTCCTTCCCTGATGTTCTCATGGCTGCTGGGCGGGGCAGAGGGGACACCCTTGGT
CTTTGCCTGTGTGTGTGGAAGTGTGTGTGTGTCCCCCAGGAATCTTAACTTTGCACACTG
GTTCCACTCCTTCCTTCCTCCCCCCCACCCCTGTCTCCCTGCATTCCCCCATGCCTCCTT
TCCCCTCTTGGGTGTTTGGGGTGATCCTGCTCCAGGCTTTCTCTTCAAGGAGGAGCCGAG
GGAAGGATTAGGATGAGTGAATCTCAGATTTCACAATTCAATAAATGCTGATGAGGTTAA
CAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GACCTCGCCCGTCCTTTCTGGATTTCGGCTCGGTGTCCGCTGTGCTGCGGGTGCTAAGGT
CCTAAGTCATGGGTGTCGCCGTTCGAGTCGTCTATTGTGGCGCTTGAGGCTACAAGTCCA
AGTATCTTCAACTCAAGAAGAAGTTAGAAGATGAGTTCCCTGGACGCCTGGACATCTGTG
GCGAGGGGACTCCCCAGGTCACCGGGTTCTTCGAAGTATTGGTAGCAGGGAAGTTGGTTC
ACTCCAAGAAGGGAGGTGATGGCTACGTGGATACGGAGAGCAAGTTTCTGAAGTTGGTGG
CTGCCATCAAAGCTGCTTTGGCTCAGGGCTAATGTGCCCTGAAGGCAGAGTCCAGTGACC
TTGGCCCAGCTCCTCTCGGCAGACGCTTCATGACAGGAAGGACTGAAATGTCTTGTGGAC
GCCTGGTCCTTCCCTGATGTTCTCATGGCTGCTGGGCGGGGCAGAGGGGACACCCTTGGT
CTTTGCCTGTGTGTGTGGAAGTGTGTGTGTGTCCCCCAGGAATCTTAACTTTGCACACTG
GTTCCACTCCTTCCTTCCTCCCCCCCACCCCTGTCTCCCTGCATTCCCCCATGCCTCCTT
TCCCCTCTTGGGTGTTTGGGGTGATCCTGCTCCAGGCTTTCTCTTCAAGGAGGAGCCGAG
GGAAGGATTAGGATGAGTGAATCTCAGATTTCACAATTCAATAAATGCTGATGAGGTTAA
CAAAAAAAAAAAAAAAAAAAAAAA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               SEPW1_PIG

Coded protein: 1 entry(ies)

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Protein identifier


               
               SEPW1_PIG

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

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

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               93-203, - strand, RNAz p=0.986321
               

               
               244-403, - strand, RNAz p=0.621319
               

               
               562-694, - strand, RNAz p=1

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


               
               93-203, - strand, RNAz p=0.986321
               

               
               244-403, - strand, RNAz p=0.621319
               

               
               562-694, - strand, RNAz p=1

ncRNA annotation: 2 entry(ies)

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               382-449, RF00031;SECIS; (AF380118.1/366-433), blast E-value=1e-31
               

               
               382-449, , RaveNnA Score=29.16

ncRNA annotation: 2 entry(ies)

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PigEST conread start position and end position of sequence/structure similarity to an annotated RNA family,
RNA family (possibly sequence identifier),
blast E-value (sequence sim.) or RaveNnA score (structure sim.)


               
               382-449, RF00031;SECIS; (AF380118.1/366-433), blast E-value=1e-31
               

               
               382-449, , RaveNnA Score=29.16

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-694, gnl|bosTau2|chr19 (19757091-19757760)
               

               
               1-694, gnl|Hg17|chr1 (31237534-31236576)
               


               
               346-693, gnl|bosTau2|chr18 (47656844-47657181)
               

               
               346-693, gnl|Hg17|chr19 (52979354-52979702)
               


               
               385-689, gnl|bosTau2|chr10 (46116533-46116247)
               

               
               385-689, gnl|Hg17|chr19 (52979393-52979698)

Aligned organism(s): 6 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


               
               1-694, gnl|bosTau2|chr19 (19757091-19757760)
               

               
               1-694, gnl|Hg17|chr1 (31237534-31236576)
               


               
               346-693, gnl|bosTau2|chr18 (47656844-47657181)
               

               
               346-693, gnl|Hg17|chr19 (52979354-52979702)
               


               
               385-689, gnl|bosTau2|chr10 (46116533-46116247)
               

               
               385-689, gnl|Hg17|chr19 (52979393-52979698)

Expressed library(ies): 38 entry(ies)

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Expressed library(ies): 38 entry(ies)

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               fcc (1.58228)
               

               
               fhi (1.35662)
               

               
               mas (1.26183)
               

               
               fce (1.08637)
               

               
               ebs (1.06471)
               

               
               ece (0.917221)
               

               
               hyp (0.85702)
               

               
               hlv (0.835538)
               

               
               ecc (0.805246)
               

               
               fty (0.703359)
               

               
               ton (0.702001)
               

               
               nlu (0.575043)
               

               
               ese (0.506009)
               

               
               eep (0.490256)
               

               
               hea (0.408998)
               

               
               fli (0.405762)
               

               
               cov (0.396458)
               

               
               col (0.390016)
               

               
               elu (0.385356)
               

               
               eru (0.360144)
               

               
               duo (0.345602)
               

               
               cag (0.302389)
               

               
               pty (0.285429)
               

               
               pla (0.267344)
               

               
               cly (0.241284)
               

               
               med (0.232504)
               

               
               nep (0.183925)
               

               
               fbs (0.175346)
               

               
               eye (0.170503)
               

               
               nje (0.16592)
               

               
               cki (0.165235)
               

               
               nco (0.161734)
               

               
               cli (0.152812)
               

               
               lnt (0.142308)
               

               
               ste (0.135208)
               

               
               jca (0.11396)
               

               
               eje (0.0988338)
               

               
               ldo (0.0970026)

Expressed library(ies): 38 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


               
               fcc (1.58228)
               

               
               fhi (1.35662)
               

               
               mas (1.26183)
               

               
               fce (1.08637)
               

               
               ebs (1.06471)
               

               
               ece (0.917221)
               

               
               hyp (0.85702)
               

               
               hlv (0.835538)
               

               
               ecc (0.805246)
               

               
               fty (0.703359)
               

               
               ton (0.702001)
               

               
               nlu (0.575043)
               

               
               ese (0.506009)
               

               
               eep (0.490256)
               

               
               hea (0.408998)
               

               
               fli (0.405762)
               

               
               cov (0.396458)
               

               
               col (0.390016)
               

               
               elu (0.385356)
               

               
               eru (0.360144)
               

               
               duo (0.345602)
               

               
               cag (0.302389)
               

               
               pty (0.285429)
               

               
               pla (0.267344)
               

               
               cly (0.241284)
               

               
               med (0.232504)
               

               
               nep (0.183925)
               

               
               fbs (0.175346)
               

               
               eye (0.170503)
               

               
               nje (0.16592)
               

               
               cki (0.165235)
               

               
               nco (0.161734)
               

               
               cli (0.152812)
               

               
               lnt (0.142308)
               

               
               ste (0.135208)
               

               
               jca (0.11396)
               

               
               eje (0.0988338)
               

               
               ldo (0.0970026)

	93-203, - strand, RNAz p=0.986321
	244-403, - strand, RNAz p=0.621319
	562-694, - strand, RNAz p=1

	382-449, RF00031;SECIS; (AF380118.1/366-433), blast E-value=1e-31
	382-449, , RaveNnA Score=29.16

	1-694, gnl\|bosTau2\|chr19 (19757091-19757760)
	1-694, gnl\|Hg17\|chr1 (31237534-31236576)

	346-693, gnl\|bosTau2\|chr18 (47656844-47657181)
	346-693, gnl\|Hg17\|chr19 (52979354-52979702)

	385-689, gnl\|bosTau2\|chr10 (46116533-46116247)
	385-689, gnl\|Hg17\|chr19 (52979393-52979698)

	fcc (1.58228)
	fhi (1.35662)
	mas (1.26183)
	fce (1.08637)
	ebs (1.06471)
	ece (0.917221)
	hyp (0.85702)
	hlv (0.835538)
	ecc (0.805246)
	fty (0.703359)
	ton (0.702001)
	nlu (0.575043)
	ese (0.506009)
	eep (0.490256)
	hea (0.408998)
	fli (0.405762)
	cov (0.396458)
	col (0.390016)
	elu (0.385356)
	eru (0.360144)
	duo (0.345602)
	cag (0.302389)
	pty (0.285429)
	pla (0.267344)
	cly (0.241284)
	med (0.232504)
	nep (0.183925)
	fbs (0.175346)
	eye (0.170503)
	nje (0.16592)
	cki (0.165235)
	nco (0.161734)
	cli (0.152812)
	lnt (0.142308)
	ste (0.135208)
	jca (0.11396)
	eje (0.0988338)
	ldo (0.0970026)