Non-Coding RNA Search

Ss1.1-rcki21_h15.5

Sequence:


               
               GCTGCAAACAGGGTTCAGATTTATTTGGGGAGCCCGCGAACATGGAGTGGGAGGTCCCTT
CCCCCACCAGCAACTGAGTGTTCCTGTCACCAGGCAGACAGAGAAGGGCTATGCGTGCTG
GGTCCCCCAGGCTTTGTCCCCACCCCCACCCCCCAAGCAGTAGGGAGGCTGATACGGAGG
GGCGTTGTCCTAGTCTGGGGTGACCCACACCGCCTCTCCTAGCCAGGACAGGAAGTGTGA
GAGCACAGAGAGGAAGCAGCTTCACAGGGAGTGATCCTGAGCCATTTACTGGACTTTTCA
AAAGGCTCCTGAGAACAGCAAGAGGGCCAGGGAGGAGCCGGCTGTGCAGGCTTCTCTCCT
CGGGCCTCGGCTGCCTCTGAATGAAAGAGCCAGTGGGCAGGGCAAAGGCAGAGTCATTCT
GTGGCACGAAGACGTCCCAGATCAGGAAGTGCCACTGACTGGGGGCTTGTGGGGCAGGTG
CTCAGAGCCCCTCACAGCACCTTGCCTGGGTTCATGAGGCCGCGGGGATCCAGTGTGGCC
TTGAACTGCCGCATGACCTCCATGCCCACGGCACCCACCTCCTCCTGCAGCAGCTGCCGT
TTGCCCAGCCCAATGCCGTGTTCCCCAGTACAGGTGCCATGGAATGCCAGTGCGTGCCTG
GCCAGCTGTTTTGAAAAGGCCATGACCTTGAGGAGCTCCTCAGGGTCCTCCGGGTCTGCC
AGCAGGATGCAGTGGAAGTTGCCATCGCCCACATGCCCAACGATGGTTCCTGTGAGTCCA
GAGGCCTTCAGGTTCTCCTTGGTCTGCACCAGGATCTCCGGCAGCCGGGAGATGGGCACG
CACACGTCGGTGGAATAGCCCTTGCAGCCGGGCCGCAGGGCTAGGGCTGCGTACCAGGCG
TTGTGCCGCGCCGCCCAGAGCCGGCTGCGCTCCTCGGCCTCCTTGGCCCAGGAGAAGTGG
GATCCTCCATTGTGCCGGGTGATCTCTTCTGTGCGCTGCACCTGCTCTGCCAGCGCCTGC
TCCGAGCCATGGAACTCGAGGAAGAGTGTGGGCGCCACGCAGCAGTTCAGCTTGCTGTGC
CTGTTGCATGCG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCTGCAAACAGGGTTCAGATTTATTTGGGGAGCCCGCGAACATGGAGTGGGAGGTCCCTT
CCCCCACCAGCAACTGAGTGTTCCTGTCACCAGGCAGACAGAGAAGGGCTATGCGTGCTG
GGTCCCCCAGGCTTTGTCCCCACCCCCACCCCCCAAGCAGTAGGGAGGCTGATACGGAGG
GGCGTTGTCCTAGTCTGGGGTGACCCACACCGCCTCTCCTAGCCAGGACAGGAAGTGTGA
GAGCACAGAGAGGAAGCAGCTTCACAGGGAGTGATCCTGAGCCATTTACTGGACTTTTCA
AAAGGCTCCTGAGAACAGCAAGAGGGCCAGGGAGGAGCCGGCTGTGCAGGCTTCTCTCCT
CGGGCCTCGGCTGCCTCTGAATGAAAGAGCCAGTGGGCAGGGCAAAGGCAGAGTCATTCT
GTGGCACGAAGACGTCCCAGATCAGGAAGTGCCACTGACTGGGGGCTTGTGGGGCAGGTG
CTCAGAGCCCCTCACAGCACCTTGCCTGGGTTCATGAGGCCGCGGGGATCCAGTGTGGCC
TTGAACTGCCGCATGACCTCCATGCCCACGGCACCCACCTCCTCCTGCAGCAGCTGCCGT
TTGCCCAGCCCAATGCCGTGTTCCCCAGTACAGGTGCCATGGAATGCCAGTGCGTGCCTG
GCCAGCTGTTTTGAAAAGGCCATGACCTTGAGGAGCTCCTCAGGGTCCTCCGGGTCTGCC
AGCAGGATGCAGTGGAAGTTGCCATCGCCCACATGCCCAACGATGGTTCCTGTGAGTCCA
GAGGCCTTCAGGTTCTCCTTGGTCTGCACCAGGATCTCCGGCAGCCGGGAGATGGGCACG
CACACGTCGGTGGAATAGCCCTTGCAGCCGGGCCGCAGGGCTAGGGCTGCGTACCAGGCG
TTGTGCCGCGCCGCCCAGAGCCGGCTGCGCTCCTCGGCCTCCTTGGCCCAGGAGAAGTGG
GATCCTCCATTGTGCCGGGTGATCTCTTCTGTGCGCTGCACCTGCTCTGCCAGCGCCTGC
TCCGAGCCATGGAACTCGAGGAAGAGTGTGGGCGCCACGCAGCAGTTCAGCTTGCTGTGC
CTGTTGCATGCG

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|61825591|ref|XP_587411.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|61825591|ref|XP_587411.1|

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               38-145, - strand, RNAz p=0.971844
               

               
               860-978, + strand, RNAz p=0.520348
               

               
               860-971, + strand, RNAz p=0.665226

Predicted RNA structure(s): 3 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


               
               38-145, - strand, RNAz p=0.971844
               

               
               860-978, + strand, RNAz p=0.520348
               

               
               860-971, + strand, RNAz p=0.665226

Aligned organism(s): 21 entry(ies)

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Aligned organism(s): 21 entry(ies)

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               38-358, gnl|bosTau2|chr18 (1371823-1372129)
               

               
               38-358, gnl|Hg17|chr16 (73703317-73703602)
               

               
               38-358, gnl|Mm7|chr8 (110226616-110226877)
               


               
               437-661, gnl|bosTau2|chr18 (1372171-1372395)
               

               
               437-661, gnl|Hg17|chr16 (73703702-73703924)
               

               
               437-661, gnl|Mm7|chr8 (110227013-110227239)
               


               
               860-992, gnl|bosTau2|chr18 (1373245-1373377)
               

               
               860-992, gnl|canFam2|chr5 (78595005-78594867)
               

               
               860-992, gnl|danRer3|chrNA (105944855-105944992)
               

               
               860-992, gnl|echTel1|scaffold_319347 (2840-2703)
               

               
               860-992, gnl|hg17|chr16 (73704928-73705067)
               

               
               860-992, gnl|Hg17|chr16 (73704933-73705065)
               

               
               860-992, gnl|mm7|chr8 (110228138-110228277)
               

               
               860-992, gnl|Mm7|chr8 (110228143-110228275)
               

               
               860-992, gnl|monDom2|scaffold_63 (10696073-10696212)
               

               
               860-992, gnl|oryCun1|scaffold_172761 (40403-40262)
               

               
               860-992, gnl|panTro1|chr18 (68098396-68098535)
               

               
               860-992, gnl|rheMac2|chr20 (73226159-73226298)
               

               
               860-992, gnl|rn3|chr19 (41549282-41549421)
               

               
               860-992, gnl|tetNig1|chrUn_random (96517838-96517974)
               

               
               860-992, gnl|xenTro1|scaffold_264 (820963-821102)

Aligned organism(s): 21 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


               
               38-358, gnl|bosTau2|chr18 (1371823-1372129)
               

               
               38-358, gnl|Hg17|chr16 (73703317-73703602)
               

               
               38-358, gnl|Mm7|chr8 (110226616-110226877)
               


               
               437-661, gnl|bosTau2|chr18 (1372171-1372395)
               

               
               437-661, gnl|Hg17|chr16 (73703702-73703924)
               

               
               437-661, gnl|Mm7|chr8 (110227013-110227239)
               


               
               860-992, gnl|bosTau2|chr18 (1373245-1373377)
               

               
               860-992, gnl|canFam2|chr5 (78595005-78594867)
               

               
               860-992, gnl|danRer3|chrNA (105944855-105944992)
               

               
               860-992, gnl|echTel1|scaffold_319347 (2840-2703)
               

               
               860-992, gnl|hg17|chr16 (73704928-73705067)
               

               
               860-992, gnl|Hg17|chr16 (73704933-73705065)
               

               
               860-992, gnl|mm7|chr8 (110228138-110228277)
               

               
               860-992, gnl|Mm7|chr8 (110228143-110228275)
               

               
               860-992, gnl|monDom2|scaffold_63 (10696073-10696212)
               

               
               860-992, gnl|oryCun1|scaffold_172761 (40403-40262)
               

               
               860-992, gnl|panTro1|chr18 (68098396-68098535)
               

               
               860-992, gnl|rheMac2|chr20 (73226159-73226298)
               

               
               860-992, gnl|rn3|chr19 (41549282-41549421)
               

               
               860-992, gnl|tetNig1|chrUn_random (96517838-96517974)
               

               
               860-992, gnl|xenTro1|scaffold_264 (820963-821102)

Expressed library(ies): 7 entry(ies)

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Expressed library(ies): 7 entry(ies)

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               fbs (0.175346)
               

               
               duo (0.172801)
               

               
               cki (0.165235)
               

               
               eli (0.151814)
               

               
               pty (0.142714)
               

               
               cst (0.140036)
               

               
               cbr (0.127975)

Expressed library(ies): 7 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


               
               fbs (0.175346)
               

               
               duo (0.172801)
               

               
               cki (0.165235)
               

               
               eli (0.151814)
               

               
               pty (0.142714)
               

               
               cst (0.140036)
               

               
               cbr (0.127975)

	38-145, - strand, RNAz p=0.971844
	860-978, + strand, RNAz p=0.520348
	860-971, + strand, RNAz p=0.665226

	38-358, gnl\|bosTau2\|chr18 (1371823-1372129)
	38-358, gnl\|Hg17\|chr16 (73703317-73703602)
	38-358, gnl\|Mm7\|chr8 (110226616-110226877)

	437-661, gnl\|bosTau2\|chr18 (1372171-1372395)
	437-661, gnl\|Hg17\|chr16 (73703702-73703924)
	437-661, gnl\|Mm7\|chr8 (110227013-110227239)

	860-992, gnl\|bosTau2\|chr18 (1373245-1373377)
	860-992, gnl\|canFam2\|chr5 (78595005-78594867)
	860-992, gnl\|danRer3\|chrNA (105944855-105944992)
	860-992, gnl\|echTel1\|scaffold_319347 (2840-2703)
	860-992, gnl\|hg17\|chr16 (73704928-73705067)
	860-992, gnl\|Hg17\|chr16 (73704933-73705065)
	860-992, gnl\|mm7\|chr8 (110228138-110228277)
	860-992, gnl\|Mm7\|chr8 (110228143-110228275)
	860-992, gnl\|monDom2\|scaffold_63 (10696073-10696212)
	860-992, gnl\|oryCun1\|scaffold_172761 (40403-40262)
	860-992, gnl\|panTro1\|chr18 (68098396-68098535)
	860-992, gnl\|rheMac2\|chr20 (73226159-73226298)
	860-992, gnl\|rn3\|chr19 (41549282-41549421)
	860-992, gnl\|tetNig1\|chrUn_random (96517838-96517974)
	860-992, gnl\|xenTro1\|scaffold_264 (820963-821102)

	fbs (0.175346)
	duo (0.172801)
	cki (0.165235)
	eli (0.151814)
	pty (0.142714)
	cst (0.140036)
	cbr (0.127975)