Non-Coding RNA Search

Ss1.1-Lym2-sn25_A01.f.5.5

Sequence:


               
               GAAAGGTGATTCCAGGAGTTAGCCAAAAAAAAAAAAAAAAAAAGTGCTGTTCAGGTTTTC
AGCTTTACAGTATCTTTGGGCAACTTTTATGTTTTTCATCATAAGTGACCAAACAGATTA
AGATGAGACCTCTGTCTGAGACCAAATCCTCTACCCTGTTCCCAATGGCTCATAGAATGG
ATCATGTGCCCCTTATGTTGAGGTGACCACTTATTATTTGCTCCCCTGCCTCCTAGAAAG
AAAGAAAATTATGTTTTGCCACTGATTTAGCCATATGAAACTCATCTCATCACCCTTTTC
TGGGTCTGAAGCTGCTGTCTCTAAAAGTGCCATCTCATTGTGCTTTGTGTCAGTTAGTGC
TGGAGAAATCTTGAATAGCTTATGTACAAAACTGTTTTTAAATTTTATATTATTTTGAAA
CTTTGCTTCTTTGGGGTTGGGGCACACTGGTCACCCCATCTGGCTGTCAGTTCTGTGCAG
TCGGCTGGCAGTGTGCTGATCATTTAAAGTTTCTTTCCCTACACAGTTCTGCCCTCCTCC
CCCCACGTTTGGTGAGGTTTCAGTGAGGTCTGTTAGGTGTGCATCCTGCAGCTTAATTGG
CTTAAAATGTACTCTTTTTTGTGGTCTCTTTGGGGGCCGATTAGGAGAAAGAAAAACCAA
TAATGTAACTGTTTTGATACTGAAAATTGATGTGTCTTTTTGAAATAAAGAACCAGTCCC
TCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATTAAATTTTCCTTGGGGGGGCCAA
ATTTTACCCTTC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAAAGGTGATTCCAGGAGTTAGCCAAAAAAAAAAAAAAAAAAAGTGCTGTTCAGGTTTTC
AGCTTTACAGTATCTTTGGGCAACTTTTATGTTTTTCATCATAAGTGACCAAACAGATTA
AGATGAGACCTCTGTCTGAGACCAAATCCTCTACCCTGTTCCCAATGGCTCATAGAATGG
ATCATGTGCCCCTTATGTTGAGGTGACCACTTATTATTTGCTCCCCTGCCTCCTAGAAAG
AAAGAAAATTATGTTTTGCCACTGATTTAGCCATATGAAACTCATCTCATCACCCTTTTC
TGGGTCTGAAGCTGCTGTCTCTAAAAGTGCCATCTCATTGTGCTTTGTGTCAGTTAGTGC
TGGAGAAATCTTGAATAGCTTATGTACAAAACTGTTTTTAAATTTTATATTATTTTGAAA
CTTTGCTTCTTTGGGGTTGGGGCACACTGGTCACCCCATCTGGCTGTCAGTTCTGTGCAG
TCGGCTGGCAGTGTGCTGATCATTTAAAGTTTCTTTCCCTACACAGTTCTGCCCTCCTCC
CCCCACGTTTGGTGAGGTTTCAGTGAGGTCTGTTAGGTGTGCATCCTGCAGCTTAATTGG
CTTAAAATGTACTCTTTTTTGTGGTCTCTTTGGGGGCCGATTAGGAGAAAGAAAAACCAA
TAATGTAACTGTTTTGATACTGAAAATTGATGTGTCTTTTTGAAATAAAGAACCAGTCCC
TCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATTAAATTTTCCTTGGGGGGGCCAA
ATTTTACCCTTC

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               399-551, + strand, RNAz p=0.999809

Predicted RNA structure(s): 1 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


               
               399-551, + strand, RNAz p=0.999809

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               429-607, + strand, RNAmicro p=0.995893

Predicted microRNA(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               429-607, + strand, RNAmicro p=0.995893

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               399-551, BW981562 full-length enriched swine cDNA library, adult intestine 
(dbj|BW981562.1|), blast E-value=0, identity=100% 
               

               
               399-551, CJ008288 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ008288.1|), blast E-value=0, identity=100% 
               

               
               399-551, CJ011156 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ011156.1|), blast E-value=0, identity=100% 
               

               
               399-551, DB812922 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB812922.1|), blast E-value=0, identity=100% 
               

               
               399-551, UMC-pd0fol-012-d09 D0 ovarian follicle gilt standing estrus pd0fol 
(gb|CO994206.1|), blast E-value=0, identity=100% 
               

               
               399-551, EST-AR156F04 Infected Porcine Peripheral Blood Cell cDNA library 
(gb|DV225710.1|), blast E-value=0, identity=100%

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


               
               399-551, BW981562 full-length enriched swine cDNA library, adult intestine 
(dbj|BW981562.1|), blast E-value=0, identity=100% 
               

               
               399-551, CJ008288 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ008288.1|), blast E-value=0, identity=100% 
               

               
               399-551, CJ011156 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ011156.1|), blast E-value=0, identity=100% 
               

               
               399-551, DB812922 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB812922.1|), blast E-value=0, identity=100% 
               

               
               399-551, UMC-pd0fol-012-d09 D0 ovarian follicle gilt standing estrus pd0fol 
(gb|CO994206.1|), blast E-value=0, identity=100% 
               

               
               399-551, EST-AR156F04 Infected Porcine Peripheral Blood Cell cDNA library 
(gb|DV225710.1|), blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               399-747, gnl|bosTau2|chrX (37184794-37185138)
               

               
               399-747, gnl|Hg17|chr15 (34694669-34694987)
               

               
               399-747, gnl|Mm7|chr3 (90231331-90231631)

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


               
               399-747, gnl|bosTau2|chrX (37184794-37185138)
               

               
               399-747, gnl|Hg17|chr15 (34694669-34694987)
               

               
               399-747, gnl|Mm7|chr3 (90231331-90231631)

Expressed library(ies): 43 entry(ies)

More info

Expressed library(ies): 43 entry(ies)

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               cje (0.826173)
               

               
               nbm (0.595948)
               

               
               sin (0.524843)
               

               
               jca (0.45584)
               

               
               col (0.390016)
               

               
               elu (0.385356)
               

               
               sug (0.381874)
               

               
               bla (0.373042)
               

               
               fhi (0.339155)
               

               
               csp (0.322373)
               

               
               cag (0.302389)
               

               
               lin (0.291206)
               

               
               csk (0.281492)
               

               
               cst (0.280073)
               

               
               che (0.272628)
               

               
               ste (0.270416)
               

               
               cly (0.241284)
               

               
               eru (0.240096)
               

               
               ebs (0.236602)
               

               
               med (0.232504)
               

               
               mas (0.210305)
               

               
               cty (0.20816)
               

               
               fli (0.202881)
               

               
               fcc (0.197785)
               

               
               sag (0.182715)
               

               
               rec (0.17307)
               

               
               cut (0.169924)
               

               
               cki (0.165235)
               

               
               tbr (0.154178)
               

               
               lun (0.150489)
               

               
               fat (0.147427)
               

               
               ski (0.146735)
               

               
               liv (0.146284)
               

               
               lnt (0.142308)
               

               
               ssp (0.13552)
               

               
               nmm (0.132802)
               

               
               ute (0.132784)
               

               
               ova (0.129132)
               

               
               thg (0.126791)
               

               
               ecc (0.115035)
               

               
               jej (0.0989218)
               

               
               eje (0.0988338)
               

               
               ldo (0.0970026)

Expressed library(ies): 43 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


               
               cje (0.826173)
               

               
               nbm (0.595948)
               

               
               sin (0.524843)
               

               
               jca (0.45584)
               

               
               col (0.390016)
               

               
               elu (0.385356)
               

               
               sug (0.381874)
               

               
               bla (0.373042)
               

               
               fhi (0.339155)
               

               
               csp (0.322373)
               

               
               cag (0.302389)
               

               
               lin (0.291206)
               

               
               csk (0.281492)
               

               
               cst (0.280073)
               

               
               che (0.272628)
               

               
               ste (0.270416)
               

               
               cly (0.241284)
               

               
               eru (0.240096)
               

               
               ebs (0.236602)
               

               
               med (0.232504)
               

               
               mas (0.210305)
               

               
               cty (0.20816)
               

               
               fli (0.202881)
               

               
               fcc (0.197785)
               

               
               sag (0.182715)
               

               
               rec (0.17307)
               

               
               cut (0.169924)
               

               
               cki (0.165235)
               

               
               tbr (0.154178)
               

               
               lun (0.150489)
               

               
               fat (0.147427)
               

               
               ski (0.146735)
               

               
               liv (0.146284)
               

               
               lnt (0.142308)
               

               
               ssp (0.13552)
               

               
               nmm (0.132802)
               

               
               ute (0.132784)
               

               
               ova (0.129132)
               

               
               thg (0.126791)
               

               
               ecc (0.115035)
               

               
               jej (0.0989218)
               

               
               eje (0.0988338)
               

               
               ldo (0.0970026)

	399-551, BW981562 full-length enriched swine cDNA library, adult intestine (dbj\|BW981562.1\|), blast E-value=0, identity=100%
	399-551, CJ008288 full-length enriched swine cDNA library, adult mesenteric (dbj\|CJ008288.1\|), blast E-value=0, identity=100%
	399-551, CJ011156 full-length enriched swine cDNA library, adult mesenteric (dbj\|CJ011156.1\|), blast E-value=0, identity=100%
	399-551, DB812922 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB812922.1\|), blast E-value=0, identity=100%
	399-551, UMC-pd0fol-012-d09 D0 ovarian follicle gilt standing estrus pd0fol (gb\|CO994206.1\|), blast E-value=0, identity=100%
	399-551, EST-AR156F04 Infected Porcine Peripheral Blood Cell cDNA library (gb\|DV225710.1\|), blast E-value=0, identity=100%

	399-747, gnl\|bosTau2\|chrX (37184794-37185138)
	399-747, gnl\|Hg17\|chr15 (34694669-34694987)
	399-747, gnl\|Mm7\|chr3 (90231331-90231631)

	cje (0.826173)
	nbm (0.595948)
	sin (0.524843)
	jca (0.45584)
	col (0.390016)
	elu (0.385356)
	sug (0.381874)
	bla (0.373042)
	fhi (0.339155)
	csp (0.322373)
	cag (0.302389)
	lin (0.291206)
	csk (0.281492)
	cst (0.280073)
	che (0.272628)
	ste (0.270416)
	cly (0.241284)
	eru (0.240096)
	ebs (0.236602)
	med (0.232504)
	mas (0.210305)
	cty (0.20816)
	fli (0.202881)
	fcc (0.197785)
	sag (0.182715)
	rec (0.17307)
	cut (0.169924)
	cki (0.165235)
	tbr (0.154178)
	lun (0.150489)
	fat (0.147427)
	ski (0.146735)
	liv (0.146284)
	lnt (0.142308)
	ssp (0.13552)
	nmm (0.132802)
	ute (0.132784)
	ova (0.129132)
	thg (0.126791)
	ecc (0.115035)
	jej (0.0989218)
	eje (0.0988338)
	ldo (0.0970026)