Non-Coding RNA Search

Ss1.1-Liv1-LVR010052B09.5

Sequence:


               
               AGCGCTGCCTCCCCGGAGCCCCCGCCGCCGCGATGAGCTTTAGCCGCCTGTTCCGCCTGC
TGAAGCCAACGCTTCTCTGCGGGACCCTGGCGGTGCCCGGCCTGGCCGGCACCATGTGCG
CGTCCCGCGACGACTGGCGATGTGCTCGCTCCATGCACGAATTCTCAGCCAAGGACATCG
ACGGGCACATGGTGAACCTGGACAAGTACCGGGGCTACGTGTGCATCGTCACCAATGTGG
CCTCTCAATGAGGCAAGACGGAGGTAAACTACACTCAGCTGGTCGACCTGCACGCCCGAT
ATGCTGAGTGTGGTTTACGGATTCTGGCCTTCCCTTGCAACCAGTTTGGGAGGCAGGAGC
CAGGGAGTGATGCTGAGATCAAAGAATTTGCTGCTGGCTACAACGTCAAATTTGATATGT
TCAGCAAGATCTGTGTGAATGGGGACGATGCCCACCCTCTGTGGAAGTGGATGAAAGTCC
AGCCCAAGGGGAGGGGCATGCTGGGAAATGCTATCAAATGGAACTTTACCAAGTTCCTCA
TTGATAAGAACGGCTGTGTGGTGAAGCGGTACGGTCCCATGGAAGAGCCCCAGGTCATAG
AGAAGGACCTGCCGTGCTACCTCTAGCTCAACAAGTGTGTGCTGAGCCTGCTGCCTGTGC
CCTCAGAGCCTTCCACCTGGCACCCATGACAGTCTGCCTAAAAACCAGCCCCTGGTGGGG
CAGACTCGAGAACCTGGCGTGCAACCCCGCCAGAGGAAGGTCCCTTGGCCCAGCTTGCAG
CTCGCACCCCACCCCAGGCTGCCTTGTGGGAATAAACCATACAAATTGGCTAGTTCAGTG
TTCCTGCTTATGGGAATAAACCATACAAATTGGCTAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGCGCTGCCTCCCCGGAGCCCCCGCCGCCGCGATGAGCTTTAGCCGCCTGTTCCGCCTGC
TGAAGCCAACGCTTCTCTGCGGGACCCTGGCGGTGCCCGGCCTGGCCGGCACCATGTGCG
CGTCCCGCGACGACTGGCGATGTGCTCGCTCCATGCACGAATTCTCAGCCAAGGACATCG
ACGGGCACATGGTGAACCTGGACAAGTACCGGGGCTACGTGTGCATCGTCACCAATGTGG
CCTCTCAATGAGGCAAGACGGAGGTAAACTACACTCAGCTGGTCGACCTGCACGCCCGAT
ATGCTGAGTGTGGTTTACGGATTCTGGCCTTCCCTTGCAACCAGTTTGGGAGGCAGGAGC
CAGGGAGTGATGCTGAGATCAAAGAATTTGCTGCTGGCTACAACGTCAAATTTGATATGT
TCAGCAAGATCTGTGTGAATGGGGACGATGCCCACCCTCTGTGGAAGTGGATGAAAGTCC
AGCCCAAGGGGAGGGGCATGCTGGGAAATGCTATCAAATGGAACTTTACCAAGTTCCTCA
TTGATAAGAACGGCTGTGTGGTGAAGCGGTACGGTCCCATGGAAGAGCCCCAGGTCATAG
AGAAGGACCTGCCGTGCTACCTCTAGCTCAACAAGTGTGTGCTGAGCCTGCTGCCTGTGC
CCTCAGAGCCTTCCACCTGGCACCCATGACAGTCTGCCTAAAAACCAGCCCCTGGTGGGG
CAGACTCGAGAACCTGGCGTGCAACCCCGCCAGAGGAAGGTCCCTTGGCCCAGCTTGCAG
CTCGCACCCCACCCCAGGCTGCCTTGTGGGAATAAACCATACAAATTGGCTAGTTCAGTG
TTCCTGCTTATGGGAATAAACCATACAAATTGGCTAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|13124722|sp|P36968|GPX4_PIG

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|13124722|sp|P36968|GPX4_PIG

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

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

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               233-345, + strand, RNAz p=0.996618

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


               
               233-345, + strand, RNAz p=0.996618

ncRNA annotation: 2 entry(ies)

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ncRNA annotation: 2 entry(ies)

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               677-741, RF00031;SECIS; (X76009.1/605-668), blast E-value=6e-25
               

               
               677-741, , RaveNnA Score=29.3

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.)


               
               677-741, RF00031;SECIS; (X76009.1/605-668), blast E-value=6e-25
               

               
               677-741, , RaveNnA Score=29.3

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-139, gnl|bosTau2|chr7 (26545697-26545834)
               

               
               1-139, gnl|Hg17|chr19 (1055017-1055146)
               

               
               1-139, gnl|Mm7|chr10 (79834172-79834283)
               


               
               195-816, gnl|bosTau2|chr12 (21702768-21703392)
               

               
               195-816, gnl|Hg17|chr19 (1056365-1057766)
               

               
               195-816, gnl|Mm7|chr10 (45687233-45687875)

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


               
               1-139, gnl|bosTau2|chr7 (26545697-26545834)
               

               
               1-139, gnl|Hg17|chr19 (1055017-1055146)
               

               
               1-139, gnl|Mm7|chr10 (79834172-79834283)
               


               
               195-816, gnl|bosTau2|chr12 (21702768-21703392)
               

               
               195-816, gnl|Hg17|chr19 (1056365-1057766)
               

               
               195-816, gnl|Mm7|chr10 (45687233-45687875)

Expressed library(ies): 48 entry(ies)

More info

Expressed library(ies): 48 entry(ies)

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               mas (1.26183)
               

               
               cov (0.925069)
               

               
               nep (0.7357)
               

               
               fhi (0.678311)
               

               
               cki (0.660939)
               

               
               cag (0.604778)
               

               
               hyp (0.571347)
               

               
               hlv (0.557025)
               

               
               fty (0.527519)
               

               
               ton (0.526501)
               

               
               csp (0.483559)
               

               
               med (0.465008)
               

               
               pty (0.428143)
               

               
               eje (0.395335)
               

               
               col (0.390016)
               

               
               nlu (0.383362)
               

               
               cly (0.361925)
               

               
               ebs (0.354904)
               

               
               fbs (0.350693)
               

               
               duo (0.345602)
               

               
               eye (0.341006)
               

               
               cli (0.305623)
               

               
               nbm (0.297974)
               

               
               jej (0.296765)
               

               
               lnt (0.284616)
               

               
               cst (0.280073)
               

               
               cga (0.279096)
               

               
               fce (0.271592)
               

               
               pla (0.267344)
               

               
               ute (0.265569)
               

               
               clu (0.239292)
               

               
               ece (0.229305)
               

               
               jca (0.22792)
               

               
               nms (0.213858)
               

               
               fcc (0.197785)
               

               
               ill (0.175593)
               

               
               cut (0.169924)
               

               
               nje (0.16592)
               

               
               eli (0.151814)
               

               
               fat (0.147427)
               

               
               nca (0.136874)
               

               
               ste (0.135208)
               

               
               nmm (0.132802)
               

               
               kid (0.129735)
               

               
               ret (0.128733)
               

               
               cbr (0.127975)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)

Expressed library(ies): 48 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


               
               mas (1.26183)
               

               
               cov (0.925069)
               

               
               nep (0.7357)
               

               
               fhi (0.678311)
               

               
               cki (0.660939)
               

               
               cag (0.604778)
               

               
               hyp (0.571347)
               

               
               hlv (0.557025)
               

               
               fty (0.527519)
               

               
               ton (0.526501)
               

               
               csp (0.483559)
               

               
               med (0.465008)
               

               
               pty (0.428143)
               

               
               eje (0.395335)
               

               
               col (0.390016)
               

               
               nlu (0.383362)
               

               
               cly (0.361925)
               

               
               ebs (0.354904)
               

               
               fbs (0.350693)
               

               
               duo (0.345602)
               

               
               eye (0.341006)
               

               
               cli (0.305623)
               

               
               nbm (0.297974)
               

               
               jej (0.296765)
               

               
               lnt (0.284616)
               

               
               cst (0.280073)
               

               
               cga (0.279096)
               

               
               fce (0.271592)
               

               
               pla (0.267344)
               

               
               ute (0.265569)
               

               
               clu (0.239292)
               

               
               ece (0.229305)
               

               
               jca (0.22792)
               

               
               nms (0.213858)
               

               
               fcc (0.197785)
               

               
               ill (0.175593)
               

               
               cut (0.169924)
               

               
               nje (0.16592)
               

               
               eli (0.151814)
               

               
               fat (0.147427)
               

               
               nca (0.136874)
               

               
               ste (0.135208)
               

               
               nmm (0.132802)
               

               
               kid (0.129735)
               

               
               ret (0.128733)
               

               
               cbr (0.127975)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)

	677-741, RF00031;SECIS; (X76009.1/605-668), blast E-value=6e-25
	677-741, , RaveNnA Score=29.3

	1-139, gnl\|bosTau2\|chr7 (26545697-26545834)
	1-139, gnl\|Hg17\|chr19 (1055017-1055146)
	1-139, gnl\|Mm7\|chr10 (79834172-79834283)

	195-816, gnl\|bosTau2\|chr12 (21702768-21703392)
	195-816, gnl\|Hg17\|chr19 (1056365-1057766)
	195-816, gnl\|Mm7\|chr10 (45687233-45687875)

	mas (1.26183)
	cov (0.925069)
	nep (0.7357)
	fhi (0.678311)
	cki (0.660939)
	cag (0.604778)
	hyp (0.571347)
	hlv (0.557025)
	fty (0.527519)
	ton (0.526501)
	csp (0.483559)
	med (0.465008)
	pty (0.428143)
	eje (0.395335)
	col (0.390016)
	nlu (0.383362)
	cly (0.361925)
	ebs (0.354904)
	fbs (0.350693)
	duo (0.345602)
	eye (0.341006)
	cli (0.305623)
	nbm (0.297974)
	jej (0.296765)
	lnt (0.284616)
	cst (0.280073)
	cga (0.279096)
	fce (0.271592)
	pla (0.267344)
	ute (0.265569)
	clu (0.239292)
	ece (0.229305)
	jca (0.22792)
	nms (0.213858)
	fcc (0.197785)
	ill (0.175593)
	cut (0.169924)
	nje (0.16592)
	eli (0.151814)
	fat (0.147427)
	nca (0.136874)
	ste (0.135208)
	nmm (0.132802)
	kid (0.129735)
	ret (0.128733)
	cbr (0.127975)
	eru (0.120048)
	pgl (0.118483)