Non-Coding RNA Search

Ss1.1-Pig4-TMW8021B06.3

Sequence:


               
               AGCGATTAGGTGTGTCAGCTGGTCCAGACAGTGAGGGGGCGACAGAGAGAGTTACTAAAG
TTGGTGAGATCCGTGTGAAGACGTTAGAAGAAATTCTTCTTGAGAGAGCCAGTCAAAAAC
GTGGAGAATTGCAAACTAAACTCAAGACAGAAGGACCTTCAAAAGTTGACGATTCTACTT
CAGGAACAAGAACCTCTTCCACTATCCGAATCAAAACATTCTCTGAGGTCCTGGCTGAAA
AGAAACACCGACAGCAGGAAGCAGAGAGACAAAAAAGCAAAAAGGATGTAACGTGCATCA
AGCTAAAGACTGATAATGACACTAAAAAAACAGTGGTTTTGCCACCTGTAGTAGCCAGCA
GAGGACAATCAGAGGAACCTGCAGGTAGAGCAAAGTCTATGCAGGAGGTGCATATCAAGA
CCCTGGAGGAAATTAAAATGGAGAAGGCACTGAGGGTGCAGCAGAGCTCTGAGAGCAGCA
CCAGCTCCCAGCCTCAGCCTGAGGCCACCCCAGGGGCTAGACGATTTCTCCGGATCACTA
AAAAAACAGGTATACAAGAAGAAAAGAAACTTCAAGAAGAAAATGAAGTTGCTTCTCAGA
GTGGTGTGACAAGAACAGAGGCTAAAGAAGCTTCAGATGAGACCACAGGAGTTGGCATCA
CTAAAATTCAAGTCAAGAGATGTGAGACAGGGAGAGAAAAGCATGTGCAGAAACTGCCAG
ACCGAAGCACCTTACAGAAGGAAAAATCAGTTTTAACACCCCTTCGGGGAGATTTAGACT
CTGGCAATACCCAATTAGCAGAGAAACCAGTGCTCGCCACTGTGCCAGGCACCACACGGC
ACCTGACTAAGCGGCTTCCCACAAAGTCATCTCAGAAGGCAGAGGTAGAAACCTCAGGGA
TTGGGGACTCAATGTTGAATGTGAAATGTGCAGCACAGGCCTTGGATAAAAGGGGTAAAG
CTAAACCTAAAGTGAATGTGAAACCATCTGTAGTTAAAGTTGTCTCATCACCCAAATTGG
CCCCCAAACGCAAGGCAGCAGAGGTCCACCCTGCTGTCATTGCAGCTGTGAAGCCACTCA
GTTCCAGCACTGTCCTGCAGGAAAGCCCAGCCAAAAAAGCAGCAGTGGCTGTGGTCCCAC
TTCTCTCTGAGGACAAATCAGTCCCTGTGCCTGAGACAGAAAAACCTAGAGACAGTTTTG
TGCTGCCTCCAACTCACTCCTCTTCAGATCTCTCCCCACCAGAAGCATCTGGCCCATCCT
CATCCCAGATGACTACAAAAACTCGCCGACTCAGCTCTACTTCAACAGGAAAGCCCCCAC
TCTCTATGGAGGATGATTTTGAGAAACTAATATGGGAGATTTCAGGAGGCAAACTAGAAG
CTGAGATTGACCTGGATCCTGGGAAGGATGAAGATGACCTTCTGCTTGAGCTATCAGAAA
TGATTGATAGCTGAAGGCGGTAGTAGAACATTTAAAGCAAACAGAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGCGATTAGGTGTGTCAGCTGGTCCAGACAGTGAGGGGGCGACAGAGAGAGTTACTAAAG
TTGGTGAGATCCGTGTGAAGACGTTAGAAGAAATTCTTCTTGAGAGAGCCAGTCAAAAAC
GTGGAGAATTGCAAACTAAACTCAAGACAGAAGGACCTTCAAAAGTTGACGATTCTACTT
CAGGAACAAGAACCTCTTCCACTATCCGAATCAAAACATTCTCTGAGGTCCTGGCTGAAA
AGAAACACCGACAGCAGGAAGCAGAGAGACAAAAAAGCAAAAAGGATGTAACGTGCATCA
AGCTAAAGACTGATAATGACACTAAAAAAACAGTGGTTTTGCCACCTGTAGTAGCCAGCA
GAGGACAATCAGAGGAACCTGCAGGTAGAGCAAAGTCTATGCAGGAGGTGCATATCAAGA
CCCTGGAGGAAATTAAAATGGAGAAGGCACTGAGGGTGCAGCAGAGCTCTGAGAGCAGCA
CCAGCTCCCAGCCTCAGCCTGAGGCCACCCCAGGGGCTAGACGATTTCTCCGGATCACTA
AAAAAACAGGTATACAAGAAGAAAAGAAACTTCAAGAAGAAAATGAAGTTGCTTCTCAGA
GTGGTGTGACAAGAACAGAGGCTAAAGAAGCTTCAGATGAGACCACAGGAGTTGGCATCA
CTAAAATTCAAGTCAAGAGATGTGAGACAGGGAGAGAAAAGCATGTGCAGAAACTGCCAG
ACCGAAGCACCTTACAGAAGGAAAAATCAGTTTTAACACCCCTTCGGGGAGATTTAGACT
CTGGCAATACCCAATTAGCAGAGAAACCAGTGCTCGCCACTGTGCCAGGCACCACACGGC
ACCTGACTAAGCGGCTTCCCACAAAGTCATCTCAGAAGGCAGAGGTAGAAACCTCAGGGA
TTGGGGACTCAATGTTGAATGTGAAATGTGCAGCACAGGCCTTGGATAAAAGGGGTAAAG
CTAAACCTAAAGTGAATGTGAAACCATCTGTAGTTAAAGTTGTCTCATCACCCAAATTGG
CCCCCAAACGCAAGGCAGCAGAGGTCCACCCTGCTGTCATTGCAGCTGTGAAGCCACTCA
GTTCCAGCACTGTCCTGCAGGAAAGCCCAGCCAAAAAAGCAGCAGTGGCTGTGGTCCCAC
TTCTCTCTGAGGACAAATCAGTCCCTGTGCCTGAGACAGAAAAACCTAGAGACAGTTTTG
TGCTGCCTCCAACTCACTCCTCTTCAGATCTCTCCCCACCAGAAGCATCTGGCCCATCCT
CATCCCAGATGACTACAAAAACTCGCCGACTCAGCTCTACTTCAACAGGAAAGCCCCCAC
TCTCTATGGAGGATGATTTTGAGAAACTAATATGGGAGATTTCAGGAGGCAAACTAGAAG
CTGAGATTGACCTGGATCCTGGGAAGGATGAAGATGACCTTCTGCTTGAGCTATCAGAAA
TGATTGATAGCTGAAGGCGGTAGTAGAACATTTAAAGCAAACAGAAAA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|55586058|ref|XP_530090.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|55586058|ref|XP_530090.1|

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

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

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               161-1481, - strand, RNAz p=0.952844
               

               
               361-480, + strand, RNAz p=0.916703

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


               
               161-1481, - strand, RNAz p=0.952844
               

               
               361-480, + strand, RNAz p=0.916703

Aligned organism(s): 9 entry(ies)

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Aligned organism(s): 9 entry(ies)

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               42-563, gnl|bosTau2|chr16 (283843-284362)
               

               
               42-563, gnl|Hg17|chr1 (200547965-200548484)
               

               
               42-563, gnl|Mm7|chr1 (133528194-133527685)
               


               
               630-960, gnl|bosTau2|chr16 (287095-287425)
               

               
               630-960, gnl|Hg17|chr1 (200550496-200550811)
               

               
               630-960, gnl|Mm7|chr1 (133525730-133525403)
               


               
               1192-1481, gnl|bosTau2|chr16 (289274-289563)
               

               
               1192-1481, gnl|Hg17|chr1 (200552922-200553207)
               

               
               1192-1481, gnl|Mm7|chr1 (133522725-133522429)

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


               
               42-563, gnl|bosTau2|chr16 (283843-284362)
               

               
               42-563, gnl|Hg17|chr1 (200547965-200548484)
               

               
               42-563, gnl|Mm7|chr1 (133528194-133527685)
               


               
               630-960, gnl|bosTau2|chr16 (287095-287425)
               

               
               630-960, gnl|Hg17|chr1 (200550496-200550811)
               

               
               630-960, gnl|Mm7|chr1 (133525730-133525403)
               


               
               1192-1481, gnl|bosTau2|chr16 (289274-289563)
               

               
               1192-1481, gnl|Hg17|chr1 (200552922-200553207)
               

               
               1192-1481, gnl|Mm7|chr1 (133522725-133522429)

Expressed library(ies): 29 entry(ies)

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Expressed library(ies): 29 entry(ies)

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               sme (0.305437)
               

               
               csk (0.281492)
               

               
               cst (0.280073)
               

               
               sug (0.254582)
               

               
               med (0.232504)
               

               
               tes (0.207814)
               

               
               sag (0.182715)
               

               
               sto (0.179824)
               

               
               ill (0.175593)
               

               
               mcp (0.170648)
               

               
               eye (0.170503)
               

               
               cut (0.169924)
               

               
               cje (0.165235)
               

               
               tbr (0.154178)
               

               
               lun (0.150489)
               

               
               isp (0.150376)
               

               
               lin (0.145603)
               

               
               lnt (0.142308)
               

               
               che (0.136314)
               

               
               ssp (0.13552)
               

               
               ste (0.135208)
               

               
               nmm (0.132802)
               

               
               eru (0.120048)
               

               
               clu (0.119646)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)
               

               
               cty (0.10408)
               

               
               eje (0.0988338)

Expressed library(ies): 29 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


               
               sme (0.305437)
               

               
               csk (0.281492)
               

               
               cst (0.280073)
               

               
               sug (0.254582)
               

               
               med (0.232504)
               

               
               tes (0.207814)
               

               
               sag (0.182715)
               

               
               sto (0.179824)
               

               
               ill (0.175593)
               

               
               mcp (0.170648)
               

               
               eye (0.170503)
               

               
               cut (0.169924)
               

               
               cje (0.165235)
               

               
               tbr (0.154178)
               

               
               lun (0.150489)
               

               
               isp (0.150376)
               

               
               lin (0.145603)
               

               
               lnt (0.142308)
               

               
               che (0.136314)
               

               
               ssp (0.13552)
               

               
               ste (0.135208)
               

               
               nmm (0.132802)
               

               
               eru (0.120048)
               

               
               clu (0.119646)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)
               

               
               cty (0.10408)
               

               
               eje (0.0988338)

	161-1481, - strand, RNAz p=0.952844
	361-480, + strand, RNAz p=0.916703

	42-563, gnl\|bosTau2\|chr16 (283843-284362)
	42-563, gnl\|Hg17\|chr1 (200547965-200548484)
	42-563, gnl\|Mm7\|chr1 (133528194-133527685)

	630-960, gnl\|bosTau2\|chr16 (287095-287425)
	630-960, gnl\|Hg17\|chr1 (200550496-200550811)
	630-960, gnl\|Mm7\|chr1 (133525730-133525403)

	1192-1481, gnl\|bosTau2\|chr16 (289274-289563)
	1192-1481, gnl\|Hg17\|chr1 (200552922-200553207)
	1192-1481, gnl\|Mm7\|chr1 (133522725-133522429)

	sme (0.305437)
	csk (0.281492)
	cst (0.280073)
	sug (0.254582)
	med (0.232504)
	tes (0.207814)
	sag (0.182715)
	sto (0.179824)
	ill (0.175593)
	mcp (0.170648)
	eye (0.170503)
	cut (0.169924)
	cje (0.165235)
	tbr (0.154178)
	lun (0.150489)
	isp (0.150376)
	lin (0.145603)
	lnt (0.142308)
	che (0.136314)
	ssp (0.13552)
	ste (0.135208)
	nmm (0.132802)
	eru (0.120048)
	clu (0.119646)
	pgl (0.118483)
	ebs (0.118301)
	jca (0.11396)
	cty (0.10408)
	eje (0.0988338)