Non-Coding RNA Search

Ss1.1-Pig4-TMW8026G01.3.5

Sequence:


               
               GGAGCCGGGGCGCCCTCCGGAAGCTTTTCCAACTTTCCAGAAGTTTCTCGGGACGGGAGG
GAGGTGGGGTGGGGGAACGCCATATATAGATCTGGACGGCGGGGGCGCGGTGGAGAGTGG
AATCCGTTCTCGGCTCGAGTGTGACACTGTGACTGTGTCCCGGCGCCCACCCAGCCCGGC
CAGGTCCTCCGTGGTGCTCCGAGCCCGCCTCCCAGCCGCCATGCGTGCCCTCCTGCTCCT
CAGCACCTTCTGCCTCCTGGCCAGGGCCCTGGCCGCCGCCGAGGTGAAGAAACCCGCCGC
CGCAGCAGCCCCCGGCACCGCGGAGAAGCTGAGCCCCAAGGCAGCCACGCTAGCTGAGCG
CAGCGCTGGCCTGGCCTTCAGCCTGTACCAGGCCATGGCCAAGGACCAGGCGGTGGAGAA
CATCCTGCTGTCGCCTGTGGTGGTGGCCTCGTCGCTGGGGCTCGTGTCGCTGGGCGGCAA
GGCGGCCACAGCGTCGCAGGCCAAGGCGGTGCTGAGCGCCGAGCAGCTGCGCGACGAGGA
GGTGCACGCGGGCCTGGGCGAGCTGCTGCGCTCGCTCAGCAACAGCACCGCGCGCAACGT
GACCTGGAAGCTGGGCAGCCGCCTGTACGGGCCCAGCTCGGTGAGCTTCGCCGAGGACTT
CGTGCGCAGCAGCAAGCAGCACTACAACTGTGAGCACTCCAAGATCAACTTCCGCGACAA
GCGCAGCGCCCTGCAGTCCATCAACGAGTGGGCGGCGCAGACCACCGACGGCAAGCTGCC
CGAGGTCACCAAAGACGTGGAGCGCACGGACGGCGCGCTGCTGGTCAACGCCATGTTCTT
CAAGCCGCACTGGGATGAGCGATTCCACCACAAGATGGTGGACAACCGAGGCTTCATGGT
GACCCGTTCCTATACCGTGGGTGTCACTATGATGCACCGGACAGGCCTCTACAACTACTA
TGACGACGAGAAGGAGAAGCTGCAAATTGTGGAGATGCCCCTGGCCCACAAGCTCTCCAG
CCTCATCATCATCATGCCCCATCACGTGGAGCCCCTCGAGCGCCTTGAAAAGCTCCTGAC
CAAAGAGCAGCTGAAGATCTGGATGGGGAAGATGCAGAAAAAGGCCGTTGCCATTTCCCT
GCCCAAGGGTGTGGTGGAAGTGACCCATGACTTGCAGAAACACCTGGCCGGGCTGGGTCT
GACTGAGGCCATCGACAAGAACAAGGCGGACCTGTCTCGCATGTCGGGCAAGAAGGACCT
GTACCTGGCCAGCGTGTTCCACGCCACCGCCTTCGAGTGGGACACGGACGGCAACCCCTT
CGACCAGGACATCTATGGCCGTGAGGAGCTGCGCAGCCCCAAGCTCTTCTACGCCGACCA
CCCCTTCATCTTCCTGGTTCGAGACACCCAGAGCGGCTCCCTGCTGTTCATCGGGCGCCT
GGTCCGGCCCAAAGGCGACAAGATGAGAGACGAGTTGTAGGGCCCCAGGGTGGGCGCGGG
ATGCCAGGGGGCAGCAGAAGGCTCCTGAGACACATGGGTGCTATGGGGACGGGGGAGCTG
AGGTCCGGCCTTGGCCAGTCCGTGGGGTGGGGGTGGGAAGGCAGAGCGGGTCTCCCGCGT
GTCTGAGCAGACCTTCCCCGCCGGAGAGCCTTCTGCTTAGACGCCGGGACCGATGCCATG
ATGCTGAGCCCAGAGGCCCTGCGTCCCGTGGGAGCTGGGCAGTCGTCGTCCGGCCCTACC
CCTCGTCCTGGGATCCGGCCTCGATCAGTGTTCCTATTTATAGCCGGGCGCTTTCTCCTC
CGTGAGACGGCATCGAGCTGGGGTTCAGCCAAGCCCTCCTGGGCTGGGCCCCCTCTTCTC
CTGACCCTCCCACCACCTCAGCGCCCTCCCCAGCTCTCTCCCAACCTTCTCCCAACTCCC
CTCAACTGTAAAACTAGGTGCTGCAGCCCCTGGGACAGGTACCCCCTCAATGGGCCTGAC
CCGGGGTGGGGGATGTCAAGAAATAGCTCCTGGGTCAGAGGGTGGGGGGCGCGGGGTTTT
TGGGCGGACTCTGGTCAGGCATCATGGGCATAAACTTTTTTTTTCCCTTTTATAGATTTT
CAAAGATGGGGAGGGAAGGGGGAAAGTGAGCCTTTGTTGCTGTCAAACCAAGAACTTATT
TGTACAATTTTTTTTTCAATAAAATGTTTCCAGTGAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGAGCCGGGGCGCCCTCCGGAAGCTTTTCCAACTTTCCAGAAGTTTCTCGGGACGGGAGG
GAGGTGGGGTGGGGGAACGCCATATATAGATCTGGACGGCGGGGGCGCGGTGGAGAGTGG
AATCCGTTCTCGGCTCGAGTGTGACACTGTGACTGTGTCCCGGCGCCCACCCAGCCCGGC
CAGGTCCTCCGTGGTGCTCCGAGCCCGCCTCCCAGCCGCCATGCGTGCCCTCCTGCTCCT
CAGCACCTTCTGCCTCCTGGCCAGGGCCCTGGCCGCCGCCGAGGTGAAGAAACCCGCCGC
CGCAGCAGCCCCCGGCACCGCGGAGAAGCTGAGCCCCAAGGCAGCCACGCTAGCTGAGCG
CAGCGCTGGCCTGGCCTTCAGCCTGTACCAGGCCATGGCCAAGGACCAGGCGGTGGAGAA
CATCCTGCTGTCGCCTGTGGTGGTGGCCTCGTCGCTGGGGCTCGTGTCGCTGGGCGGCAA
GGCGGCCACAGCGTCGCAGGCCAAGGCGGTGCTGAGCGCCGAGCAGCTGCGCGACGAGGA
GGTGCACGCGGGCCTGGGCGAGCTGCTGCGCTCGCTCAGCAACAGCACCGCGCGCAACGT
GACCTGGAAGCTGGGCAGCCGCCTGTACGGGCCCAGCTCGGTGAGCTTCGCCGAGGACTT
CGTGCGCAGCAGCAAGCAGCACTACAACTGTGAGCACTCCAAGATCAACTTCCGCGACAA
GCGCAGCGCCCTGCAGTCCATCAACGAGTGGGCGGCGCAGACCACCGACGGCAAGCTGCC
CGAGGTCACCAAAGACGTGGAGCGCACGGACGGCGCGCTGCTGGTCAACGCCATGTTCTT
CAAGCCGCACTGGGATGAGCGATTCCACCACAAGATGGTGGACAACCGAGGCTTCATGGT
GACCCGTTCCTATACCGTGGGTGTCACTATGATGCACCGGACAGGCCTCTACAACTACTA
TGACGACGAGAAGGAGAAGCTGCAAATTGTGGAGATGCCCCTGGCCCACAAGCTCTCCAG
CCTCATCATCATCATGCCCCATCACGTGGAGCCCCTCGAGCGCCTTGAAAAGCTCCTGAC
CAAAGAGCAGCTGAAGATCTGGATGGGGAAGATGCAGAAAAAGGCCGTTGCCATTTCCCT
GCCCAAGGGTGTGGTGGAAGTGACCCATGACTTGCAGAAACACCTGGCCGGGCTGGGTCT
GACTGAGGCCATCGACAAGAACAAGGCGGACCTGTCTCGCATGTCGGGCAAGAAGGACCT
GTACCTGGCCAGCGTGTTCCACGCCACCGCCTTCGAGTGGGACACGGACGGCAACCCCTT
CGACCAGGACATCTATGGCCGTGAGGAGCTGCGCAGCCCCAAGCTCTTCTACGCCGACCA
CCCCTTCATCTTCCTGGTTCGAGACACCCAGAGCGGCTCCCTGCTGTTCATCGGGCGCCT
GGTCCGGCCCAAAGGCGACAAGATGAGAGACGAGTTGTAGGGCCCCAGGGTGGGCGCGGG
ATGCCAGGGGGCAGCAGAAGGCTCCTGAGACACATGGGTGCTATGGGGACGGGGGAGCTG
AGGTCCGGCCTTGGCCAGTCCGTGGGGTGGGGGTGGGAAGGCAGAGCGGGTCTCCCGCGT
GTCTGAGCAGACCTTCCCCGCCGGAGAGCCTTCTGCTTAGACGCCGGGACCGATGCCATG
ATGCTGAGCCCAGAGGCCCTGCGTCCCGTGGGAGCTGGGCAGTCGTCGTCCGGCCCTACC
CCTCGTCCTGGGATCCGGCCTCGATCAGTGTTCCTATTTATAGCCGGGCGCTTTCTCCTC
CGTGAGACGGCATCGAGCTGGGGTTCAGCCAAGCCCTCCTGGGCTGGGCCCCCTCTTCTC
CTGACCCTCCCACCACCTCAGCGCCCTCCCCAGCTCTCTCCCAACCTTCTCCCAACTCCC
CTCAACTGTAAAACTAGGTGCTGCAGCCCCTGGGACAGGTACCCCCTCAATGGGCCTGAC
CCGGGGTGGGGGATGTCAAGAAATAGCTCCTGGGTCAGAGGGTGGGGGGCGCGGGGTTTT
TGGGCGGACTCTGGTCAGGCATCATGGGCATAAACTTTTTTTTTCCCTTTTATAGATTTT
CAAAGATGGGGAGGGAAGGGGGAAAGTGAGCCTTTGTTGCTGTCAAACCAAGAACTTATT
TGTACAATTTTTTTTTCAATAAAATGTTTCCAGTGAAAAAAAAAAAAAAAAAAAAAAAAA

Coded protein: 1 entry(ies)

More info

Coded protein: 1 entry(ies)

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               gi|6606313|gb|AAF19166.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|6606313|gb|AAF19166.1|

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

More info

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

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               381-500, - strand, RNAz p=0.670883
               

               
               541-660, - strand, RNAz p=0.625374

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


               
               381-500, - strand, RNAz p=0.670883
               

               
               541-660, - strand, RNAz p=0.625374

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               182-845, gnl|bosTau2|chr15 (35216489-35217146)
               

               
               182-845, gnl|Hg17|chr11 (74955007-74955664)
               

               
               182-845, gnl|Mm7|chr7 (95380250-95379596)
               


               
               1175-2198, gnl|bosTau2|chr15 (35221735-35222736)
               

               
               1175-2198, gnl|Hg17|chr11 (74960471-74961476)
               

               
               1175-2198, gnl|Mm7|chr7 (95377218-95376226)

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


               
               182-845, gnl|bosTau2|chr15 (35216489-35217146)
               

               
               182-845, gnl|Hg17|chr11 (74955007-74955664)
               

               
               182-845, gnl|Mm7|chr7 (95380250-95379596)
               


               
               1175-2198, gnl|bosTau2|chr15 (35221735-35222736)
               

               
               1175-2198, gnl|Hg17|chr11 (74960471-74961476)
               

               
               1175-2198, gnl|Mm7|chr7 (95377218-95376226)

Expressed library(ies): 36 entry(ies)

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Expressed library(ies): 36 entry(ies)

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               nca (2.32685)
               

               
               eep (2.08359)
               

               
               amn (1.67084)
               

               
               nep (1.65532)
               

               
               eru (1.56062)
               

               
               cov (1.32153)
               

               
               elu (1.15607)
               

               
               jca (0.797721)
               

               
               nlu (0.766724)
               

               
               cag (0.755972)
               

               
               nms (0.641574)
               

               
               ese (0.632511)
               

               
               cly (0.603209)
               

               
               che (0.545256)
               

               
               eje (0.395335)
               

               
               clu (0.358938)
               

               
               med (0.348756)
               

               
               mcp (0.341297)
               

               
               nco (0.323468)
               

               
               cga (0.279096)
               

               
               hlv (0.278513)
               

               
               ebs (0.236602)
               

               
               ece (0.229305)
               

               
               mas (0.210305)
               

               
               nbm (0.198649)
               

               
               jej (0.197844)
               

               
               col (0.195008)
               

               
               fhi (0.169578)
               

               
               cki (0.165235)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               csk (0.140746)
               

               
               cst (0.140036)
               

               
               nmm (0.132802)
               

               
               bla (0.124347)
               

               
               cty (0.10408)

Expressed library(ies): 36 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


               
               nca (2.32685)
               

               
               eep (2.08359)
               

               
               amn (1.67084)
               

               
               nep (1.65532)
               

               
               eru (1.56062)
               

               
               cov (1.32153)
               

               
               elu (1.15607)
               

               
               jca (0.797721)
               

               
               nlu (0.766724)
               

               
               cag (0.755972)
               

               
               nms (0.641574)
               

               
               ese (0.632511)
               

               
               cly (0.603209)
               

               
               che (0.545256)
               

               
               eje (0.395335)
               

               
               clu (0.358938)
               

               
               med (0.348756)
               

               
               mcp (0.341297)
               

               
               nco (0.323468)
               

               
               cga (0.279096)
               

               
               hlv (0.278513)
               

               
               ebs (0.236602)
               

               
               ece (0.229305)
               

               
               mas (0.210305)
               

               
               nbm (0.198649)
               

               
               jej (0.197844)
               

               
               col (0.195008)
               

               
               fhi (0.169578)
               

               
               cki (0.165235)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               csk (0.140746)
               

               
               cst (0.140036)
               

               
               nmm (0.132802)
               

               
               bla (0.124347)
               

               
               cty (0.10408)

	381-500, - strand, RNAz p=0.670883
	541-660, - strand, RNAz p=0.625374

	182-845, gnl\|bosTau2\|chr15 (35216489-35217146)
	182-845, gnl\|Hg17\|chr11 (74955007-74955664)
	182-845, gnl\|Mm7\|chr7 (95380250-95379596)

	1175-2198, gnl\|bosTau2\|chr15 (35221735-35222736)
	1175-2198, gnl\|Hg17\|chr11 (74960471-74961476)
	1175-2198, gnl\|Mm7\|chr7 (95377218-95376226)

	nca (2.32685)
	eep (2.08359)
	amn (1.67084)
	nep (1.65532)
	eru (1.56062)
	cov (1.32153)
	elu (1.15607)
	jca (0.797721)
	nlu (0.766724)
	cag (0.755972)
	nms (0.641574)
	ese (0.632511)
	cly (0.603209)
	che (0.545256)
	eje (0.395335)
	clu (0.358938)
	med (0.348756)
	mcp (0.341297)
	nco (0.323468)
	cga (0.279096)
	hlv (0.278513)
	ebs (0.236602)
	ece (0.229305)
	mas (0.210305)
	nbm (0.198649)
	jej (0.197844)
	col (0.195008)
	fhi (0.169578)
	cki (0.165235)
	pty (0.142714)
	lnt (0.142308)
	csk (0.140746)
	cst (0.140036)
	nmm (0.132802)
	bla (0.124347)
	cty (0.10408)