Non-Coding RNA Search

Ss1.1-rhlv21b_d9.5

Sequence:


               
               AGGAGGTGCTGGGGCGTTTGCTCTCCCGCCCTCTGCGGGAACCGCCGGCTCCTCCCTCCT
CGGACCTTCTCCCCGACCGGCAGCGCGGGAGGGAGGCCGAGATGGCAGATGAGATCGCCA
AGGCTCAGGCCGCCCGGCCTGGTGGCGATACGATCTTCGGGAAGATCATTCGCAAGGAAA
TCCCAGCCAAAATCATTTATGAGGATGACCAGTGTCTTGCTTTCCATGACATTTCCCCTC
AAGCACCAACACATTTTCTGGTGATACCCAAGAAACATATATCTCAGATTTCTGCAGCAG
AAGATGATGATGAAAGCCTTCTTGGACATTTAATGATTGTTGGCAAGAAATGTGCTGCTG
ATCTGGGCCTGAAGAAGGGTTATCGAATGGTGGTGAACGAAGGTTCAGATGGGGGACAGT
CTGTCTACCATGTTCATCTCCATGTTCTTGGAGGTCGGCAGATGAACTGGCCTCCTGGTT
AAGTGTGGTGCAGGGAGAATTTTCCCTCTCTAGGCAGCGATCAGGTCTGCAAGTTCCAAT
ATGCTAAAAGTACACTTTTTGCCTGTGTATGAAGAAAATGCAGAAATAATTTTAAAAACC
TATACATAATAAAAGACATTGATGCATGGTTTGAATTCTGTATTTGACTTATTTCAAAAA
ACTGATTTGTTGGACTGATTGAAAGTGGAGTTCATAATTTGGGAGGTTTTTTGATTTTTT
TTTTCTCCCTAAGGAGAGAAGTGTGACTGGCCTTTGAAGACAAATTTTAAAATTTCATAA
AGTTAGCTTTAGTTTTGAAATACCCTTTTATGGTAAAATATTAGTTCAGAAGATTTTCTC
ATCTAGTTCTCTTATTTTTTCTAAGAACAGACGAGTATGTTATGTGATTGATCCAGAAAG
TGACATTTTGGAGTCTAGAAAAAATGCTTTTTTTTGGACTCTTGGGGTAATTTGTAAAGG
AGGAAGGTAGATACGTCACAGAATCTTTGATGCCCATATGAAGGCATACAGTGATATTTC
CTGGTTACCTAAACTTTGAGTATTTATTATAAAGACTTGAAAACATAATCTTTAGAATTA
ACTTTCCAAATTGAAAACTCAGTGTTTTGAATGTGTATGTCCACATGAGCAAAAATATTT
TAAATTGTGCATGAACTGGCTATGTCAAATTGAAGGAGGGGATCTCGAGGTCTGCGTTCA
TAGACTGACAACAAAACTGAATTTTTTTGGTCTTGCCATATACCCTAACTAACCTTTCTA
AGGTTGTACAGGGCAAACAGTTTTGCTTGTTTGCGCTCCTTCATGTGGGTAATTGCCAGC
TTCTAAAACACAAGTCATACTTTTGGTCTGTTCTTTCGTTCTCTTTGTGCTTATGGATTC
CATTCATTTTTAATTTCTAAGACCATTTTAGTAGATTCTGACACATTGCAAATTGTATTT
TTAATTTTAATTTTTAACTTTGTTAGTGACTGAAAAGTTTCAGGGGCAGGGGTGGTGAAG
GGAAACTGGCTGTGTATGTCTTACAAGTAATTTTTTCCAACTGTCATTTTTTTACTTTGT
TTACGGTGTTTAAAATATTTGTATAATTCATATATCAATTTTTATTTAGTTCATATTTTA
AAAAGCCTTTCCCACTCCAGGTGGATTTATAATAATTTTTCCCCTAATACTTTATGGCTT
TATGTATTTTTATGAATTTTCTTATGGGGGAATGTCTGGGGAGGCATTTTGGAGGTATTT
GTGCCACTGTAAAGAATGTAGTAATGAGAGAAGCATTTGTATTATATATATGAGTGTTGA
GTCTACTTTCATTAGGCATATTAACTTTCTGATTGATTTTGTCAAACTAGTGCTAATAAA
TCATGTAGACAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGGAGGTGCTGGGGCGTTTGCTCTCCCGCCCTCTGCGGGAACCGCCGGCTCCTCCCTCCT
CGGACCTTCTCCCCGACCGGCAGCGCGGGAGGGAGGCCGAGATGGCAGATGAGATCGCCA
AGGCTCAGGCCGCCCGGCCTGGTGGCGATACGATCTTCGGGAAGATCATTCGCAAGGAAA
TCCCAGCCAAAATCATTTATGAGGATGACCAGTGTCTTGCTTTCCATGACATTTCCCCTC
AAGCACCAACACATTTTCTGGTGATACCCAAGAAACATATATCTCAGATTTCTGCAGCAG
AAGATGATGATGAAAGCCTTCTTGGACATTTAATGATTGTTGGCAAGAAATGTGCTGCTG
ATCTGGGCCTGAAGAAGGGTTATCGAATGGTGGTGAACGAAGGTTCAGATGGGGGACAGT
CTGTCTACCATGTTCATCTCCATGTTCTTGGAGGTCGGCAGATGAACTGGCCTCCTGGTT
AAGTGTGGTGCAGGGAGAATTTTCCCTCTCTAGGCAGCGATCAGGTCTGCAAGTTCCAAT
ATGCTAAAAGTACACTTTTTGCCTGTGTATGAAGAAAATGCAGAAATAATTTTAAAAACC
TATACATAATAAAAGACATTGATGCATGGTTTGAATTCTGTATTTGACTTATTTCAAAAA
ACTGATTTGTTGGACTGATTGAAAGTGGAGTTCATAATTTGGGAGGTTTTTTGATTTTTT
TTTTCTCCCTAAGGAGAGAAGTGTGACTGGCCTTTGAAGACAAATTTTAAAATTTCATAA
AGTTAGCTTTAGTTTTGAAATACCCTTTTATGGTAAAATATTAGTTCAGAAGATTTTCTC
ATCTAGTTCTCTTATTTTTTCTAAGAACAGACGAGTATGTTATGTGATTGATCCAGAAAG
TGACATTTTGGAGTCTAGAAAAAATGCTTTTTTTTGGACTCTTGGGGTAATTTGTAAAGG
AGGAAGGTAGATACGTCACAGAATCTTTGATGCCCATATGAAGGCATACAGTGATATTTC
CTGGTTACCTAAACTTTGAGTATTTATTATAAAGACTTGAAAACATAATCTTTAGAATTA
ACTTTCCAAATTGAAAACTCAGTGTTTTGAATGTGTATGTCCACATGAGCAAAAATATTT
TAAATTGTGCATGAACTGGCTATGTCAAATTGAAGGAGGGGATCTCGAGGTCTGCGTTCA
TAGACTGACAACAAAACTGAATTTTTTTGGTCTTGCCATATACCCTAACTAACCTTTCTA
AGGTTGTACAGGGCAAACAGTTTTGCTTGTTTGCGCTCCTTCATGTGGGTAATTGCCAGC
TTCTAAAACACAAGTCATACTTTTGGTCTGTTCTTTCGTTCTCTTTGTGCTTATGGATTC
CATTCATTTTTAATTTCTAAGACCATTTTAGTAGATTCTGACACATTGCAAATTGTATTT
TTAATTTTAATTTTTAACTTTGTTAGTGACTGAAAAGTTTCAGGGGCAGGGGTGGTGAAG
GGAAACTGGCTGTGTATGTCTTACAAGTAATTTTTTCCAACTGTCATTTTTTTACTTTGT
TTACGGTGTTTAAAATATTTGTATAATTCATATATCAATTTTTATTTAGTTCATATTTTA
AAAAGCCTTTCCCACTCCAGGTGGATTTATAATAATTTTTCCCCTAATACTTTATGGCTT
TATGTATTTTTATGAATTTTCTTATGGGGGAATGTCTGGGGAGGCATTTTGGAGGTATTT
GTGCCACTGTAAAGAATGTAGTAATGAGAGAAGCATTTGTATTATATATATGAGTGTTGA
GTCTACTTTCATTAGGCATATTAACTTTCTGATTGATTTTGTCAAACTAGTGCTAATAAA
TCATGTAGACAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Coded protein: 1 entry(ies)

More info

Coded protein: 1 entry(ies)

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               gi|11559960|ref|NP_071528.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|11559960|ref|NP_071528.1|

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

More info

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

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               111-223, - strand, RNAz p=0.56865
               

               
               368-487, + strand, RNAz p=0.83008

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


               
               111-223, - strand, RNAz p=0.56865
               

               
               368-487, + strand, RNAz p=0.83008

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               49-635, gnl|bosTau2|chr1 (73876443-73877017)
               

               
               49-635, gnl|Hg17|chr7 (142527042-142526451)
               

               
               49-635, gnl|Mm7|chr11 (54823197-54827251)

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


               
               49-635, gnl|bosTau2|chr1 (73876443-73877017)
               

               
               49-635, gnl|Hg17|chr7 (142527042-142526451)
               

               
               49-635, gnl|Mm7|chr11 (54823197-54827251)

Expressed library(ies): 65 entry(ies)

More info

Expressed library(ies): 65 entry(ies)

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               ill (1.22915)
               

               
               hea (1.22699)
               

               
               fco (1.10046)
               

               
               pro (1.02407)
               

               
               cje (0.991408)
               

               
               col (0.975039)
               

               
               cte (0.87822)
               

               
               kid (0.778412)
               

               
               nlu (0.766724)
               

               
               pty (0.713572)
               

               
               fbs (0.701385)
               

               
               nmm (0.664011)
               

               
               ssp (0.542079)
               

               
               ova (0.516529)
               

               
               nje (0.49776)
               

               
               mga (0.480615)
               

               
               cbe (0.478469)
               

               
               pgl (0.473934)
               

               
               ebs (0.473205)
               

               
               mgp (0.461361)
               

               
               jca (0.45584)
               

               
               nms (0.427716)
               

               
               mas (0.42061)
               

               
               cst (0.420109)
               

               
               hlv (0.417769)
               

               
               che (0.408942)
               

               
               nbm (0.397298)
               

               
               fcc (0.39557)
               

               
               med (0.348756)
               

               
               duo (0.345602)
               

               
               eye (0.341006)
               

               
               jej (0.296765)
               

               
               eje (0.296501)
               

               
               ski (0.29347)
               

               
               lin (0.291206)
               

               
               ldo (0.291008)
               

               
               nca (0.273748)
               

               
               lyg (0.266205)
               

               
               ese (0.253004)
               

               
               eep (0.245128)
               

               
               ecc (0.23007)
               

               
               ece (0.229305)
               

               
               spc (0.226732)
               

               
               tes (0.207814)
               

               
               fli (0.202881)
               

               
               nep (0.183925)
               

               
               gul (0.177588)
               

               
               sin (0.174948)
               

               
               cki (0.165235)
               

               
               cli (0.152812)
               

               
               eli (0.151814)
               

               
               cag (0.151194)
               

               
               isp (0.150376)
               

               
               bfe (0.149858)
               

               
               fat (0.147427)
               

               
               spl (0.143184)
               

               
               hyp (0.142837)
               

               
               lnt (0.142308)
               

               
               ste (0.135208)
               

               
               cov (0.132153)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               thg (0.126791)
               

               
               bla (0.124347)
               

               
               eru (0.120048)

Expressed library(ies): 65 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


               
               ill (1.22915)
               

               
               hea (1.22699)
               

               
               fco (1.10046)
               

               
               pro (1.02407)
               

               
               cje (0.991408)
               

               
               col (0.975039)
               

               
               cte (0.87822)
               

               
               kid (0.778412)
               

               
               nlu (0.766724)
               

               
               pty (0.713572)
               

               
               fbs (0.701385)
               

               
               nmm (0.664011)
               

               
               ssp (0.542079)
               

               
               ova (0.516529)
               

               
               nje (0.49776)
               

               
               mga (0.480615)
               

               
               cbe (0.478469)
               

               
               pgl (0.473934)
               

               
               ebs (0.473205)
               

               
               mgp (0.461361)
               

               
               jca (0.45584)
               

               
               nms (0.427716)
               

               
               mas (0.42061)
               

               
               cst (0.420109)
               

               
               hlv (0.417769)
               

               
               che (0.408942)
               

               
               nbm (0.397298)
               

               
               fcc (0.39557)
               

               
               med (0.348756)
               

               
               duo (0.345602)
               

               
               eye (0.341006)
               

               
               jej (0.296765)
               

               
               eje (0.296501)
               

               
               ski (0.29347)
               

               
               lin (0.291206)
               

               
               ldo (0.291008)
               

               
               nca (0.273748)
               

               
               lyg (0.266205)
               

               
               ese (0.253004)
               

               
               eep (0.245128)
               

               
               ecc (0.23007)
               

               
               ece (0.229305)
               

               
               spc (0.226732)
               

               
               tes (0.207814)
               

               
               fli (0.202881)
               

               
               nep (0.183925)
               

               
               gul (0.177588)
               

               
               sin (0.174948)
               

               
               cki (0.165235)
               

               
               cli (0.152812)
               

               
               eli (0.151814)
               

               
               cag (0.151194)
               

               
               isp (0.150376)
               

               
               bfe (0.149858)
               

               
               fat (0.147427)
               

               
               spl (0.143184)
               

               
               hyp (0.142837)
               

               
               lnt (0.142308)
               

               
               ste (0.135208)
               

               
               cov (0.132153)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               thg (0.126791)
               

               
               bla (0.124347)
               

               
               eru (0.120048)

	111-223, - strand, RNAz p=0.56865
	368-487, + strand, RNAz p=0.83008

	49-635, gnl\|bosTau2\|chr1 (73876443-73877017)
	49-635, gnl\|Hg17\|chr7 (142527042-142526451)
	49-635, gnl\|Mm7\|chr11 (54823197-54827251)

	ill (1.22915)
	hea (1.22699)
	fco (1.10046)
	pro (1.02407)
	cje (0.991408)
	col (0.975039)
	cte (0.87822)
	kid (0.778412)
	nlu (0.766724)
	pty (0.713572)
	fbs (0.701385)
	nmm (0.664011)
	ssp (0.542079)
	ova (0.516529)
	nje (0.49776)
	mga (0.480615)
	cbe (0.478469)
	pgl (0.473934)
	ebs (0.473205)
	mgp (0.461361)
	jca (0.45584)
	nms (0.427716)
	mas (0.42061)
	cst (0.420109)
	hlv (0.417769)
	che (0.408942)
	nbm (0.397298)
	fcc (0.39557)
	med (0.348756)
	duo (0.345602)
	eye (0.341006)
	jej (0.296765)
	eje (0.296501)
	ski (0.29347)
	lin (0.291206)
	ldo (0.291008)
	nca (0.273748)
	lyg (0.266205)
	ese (0.253004)
	eep (0.245128)
	ecc (0.23007)
	ece (0.229305)
	spc (0.226732)
	tes (0.207814)
	fli (0.202881)
	nep (0.183925)
	gul (0.177588)
	sin (0.174948)
	cki (0.165235)
	cli (0.152812)
	eli (0.151814)
	cag (0.151194)
	isp (0.150376)
	bfe (0.149858)
	fat (0.147427)
	spl (0.143184)
	hyp (0.142837)
	lnt (0.142308)
	ste (0.135208)
	cov (0.132153)
	ret (0.128733)
	sug (0.127291)
	thg (0.126791)
	bla (0.124347)
	eru (0.120048)