Non-Coding RNA Search

Ss1.1-LyN1-MLN01B040025.5.5

Sequence:


               
               AAATTGATGTGACTTAGTCCTTCGCCTCTTAGGATGAAGCGAGCATTTCTGTACAGAAGA
ATTCATGCCCTTAATGTTTTGAATGTAATTTTGTTTTCAAATCGTCCATTAACACATGAC
TTTCAGAAGCAGTTTGCTGCTTCTCCAAGGTTCATTGCATATGCTAGATAACTAATAGGC
CATCAGTTAATATTTGTGGGTCGATTGAGTTCATCTAGTTTGTAGTGAGGTGTGCCTCCC
GACTCCCTTTTGCTCCCAAGTGCATGGGAGAAGTAAAATGCTCTAGGGAGTGGAACAAGA
ATTGAGTGGATGCAGACTCTGTGCCAACCTCCTCAACTGATTCATAATGGCTGACCTTGG
GCAAGTCACTCCTTTCAATGCCTCAGTTCCCCATCTGTCAAATGGGGGTAATAATACTGA
CTACCTCACAGGGGTGTTGTGAGGCATTGTAAATCAAAATTGATAGAATACTTTAGGGTC
CTCAATGGAGGACGCCTTGAGCCGAAATCCAGGCCTGCCATAGGCTTTTGTCCTCACTGA
GCTGTCCCAAGGTTGGAACTACTTAGTGACCTCGGCAAGTTCTCTGCCCCCCACCCCTCA
TCAAAGCTGCTAGTTCAGATGTTGACAGTGTTTTCAAGAATGTTGGCGTCTTTTGATAGT
CCAGACTGACTTAGGATGTTATGGGGGAAGGCACTTAGTATTTTCTATGGCTTGCATCCA
CAAAGAGAGGCTGTTTGAGACCCAAGAGCATTGGATTAGGGAATCAGGGATGCTCCTGCT
TGTTTCTCTGCAGGTTGGGAACTAAGGTCCTGTACCCCATGGACTTGGAACAGACTTGGG
CCGTCTTGGGAGCAAAGTGCACACAGTGGGTTTGATTTATAACTTTGCTTTTTGCTCCCT
GAACTGATCTGAGGTCGGTTGGATCACTTCACCCCTTCGTGGTATCTGTACCCAAGCCTC
CCTGCCCCCCATGAGAACCAGCTGGTTCAATAAGCATAACCACTTTCTCCATCCCCCACC
AAACAAGAGCCACATTAGAAAAAAAATTTATTGGAGATATACTTAACATTCAGAATTGGG
CATTGATACTCCTGAAAACTTCATCCAATTCACTGTACTCAGCATCTGTCATCTCTTTCT
CAGTGTCTACAGTTTGAACCTGACTTTGACCTTTTTTCCCCTCTGGTTTGGGAAAACTTT
GGACACTTTCTATTTGCCCAGGTGTGGGCTCAAGAGCCTTACTATCCATCTCAGTTTAGG
GGCTCAGCCAGCTCCTCTTCCCAATAGGGCTCTTTCCCTCTCCTTGACCCTAGATGTGTA
ACCCCTGAAAAAGCACAAGGTCCCGGCCCCTTGCTGCGGTCCCATTTCGGTTCTCGGTGT
TTTGTGGACTCTGCTCCTCTGTTCACTGCAGTGGCGGCACCAGGCGGTTCTCTGGAGGAT
GGAGAGAGCACAGTCTGACATCCTGCCAAGCAGCCAGGAGTTGATACGCCCATGGCCCGC
AGGCCTTCCCTCCCCTTCCCTCAGGATGGGATCGAATAGACATGAGAGGCTGGGTTTCAG
CGCTCTGTACCATCCTGAGTAGCAAACAAATCACACTTTGTAGCCAGATTTCTGAATGGA
AAAGTGGAAAATTGAATTCTCTATGGACCTTTTTGGTTTGTGGGGGAGTTTTGGTTGTGT
TTCCTGGTTTTATTTCAGCCAAACATGTCTGCTTTTGATTTTTTTTTTTTTTTTAGGATA
AGTGATATATATATATGTTCGCCTTTTAAATGTAAATGTTTAAAAGTAGGCAATTTATGT
GTTTCCACAACTGACATCTGATGCAGACCTCATTCTCTCCCCCTCTTCCACCCTCCTCTT
TTCCCTCTTTTCATACTCTTGTATTGGTTCTAATAAATGGTTGCTTTTCAAATAAAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAATTGATGTGACTTAGTCCTTCGCCTCTTAGGATGAAGCGAGCATTTCTGTACAGAAGA
ATTCATGCCCTTAATGTTTTGAATGTAATTTTGTTTTCAAATCGTCCATTAACACATGAC
TTTCAGAAGCAGTTTGCTGCTTCTCCAAGGTTCATTGCATATGCTAGATAACTAATAGGC
CATCAGTTAATATTTGTGGGTCGATTGAGTTCATCTAGTTTGTAGTGAGGTGTGCCTCCC
GACTCCCTTTTGCTCCCAAGTGCATGGGAGAAGTAAAATGCTCTAGGGAGTGGAACAAGA
ATTGAGTGGATGCAGACTCTGTGCCAACCTCCTCAACTGATTCATAATGGCTGACCTTGG
GCAAGTCACTCCTTTCAATGCCTCAGTTCCCCATCTGTCAAATGGGGGTAATAATACTGA
CTACCTCACAGGGGTGTTGTGAGGCATTGTAAATCAAAATTGATAGAATACTTTAGGGTC
CTCAATGGAGGACGCCTTGAGCCGAAATCCAGGCCTGCCATAGGCTTTTGTCCTCACTGA
GCTGTCCCAAGGTTGGAACTACTTAGTGACCTCGGCAAGTTCTCTGCCCCCCACCCCTCA
TCAAAGCTGCTAGTTCAGATGTTGACAGTGTTTTCAAGAATGTTGGCGTCTTTTGATAGT
CCAGACTGACTTAGGATGTTATGGGGGAAGGCACTTAGTATTTTCTATGGCTTGCATCCA
CAAAGAGAGGCTGTTTGAGACCCAAGAGCATTGGATTAGGGAATCAGGGATGCTCCTGCT
TGTTTCTCTGCAGGTTGGGAACTAAGGTCCTGTACCCCATGGACTTGGAACAGACTTGGG
CCGTCTTGGGAGCAAAGTGCACACAGTGGGTTTGATTTATAACTTTGCTTTTTGCTCCCT
GAACTGATCTGAGGTCGGTTGGATCACTTCACCCCTTCGTGGTATCTGTACCCAAGCCTC
CCTGCCCCCCATGAGAACCAGCTGGTTCAATAAGCATAACCACTTTCTCCATCCCCCACC
AAACAAGAGCCACATTAGAAAAAAAATTTATTGGAGATATACTTAACATTCAGAATTGGG
CATTGATACTCCTGAAAACTTCATCCAATTCACTGTACTCAGCATCTGTCATCTCTTTCT
CAGTGTCTACAGTTTGAACCTGACTTTGACCTTTTTTCCCCTCTGGTTTGGGAAAACTTT
GGACACTTTCTATTTGCCCAGGTGTGGGCTCAAGAGCCTTACTATCCATCTCAGTTTAGG
GGCTCAGCCAGCTCCTCTTCCCAATAGGGCTCTTTCCCTCTCCTTGACCCTAGATGTGTA
ACCCCTGAAAAAGCACAAGGTCCCGGCCCCTTGCTGCGGTCCCATTTCGGTTCTCGGTGT
TTTGTGGACTCTGCTCCTCTGTTCACTGCAGTGGCGGCACCAGGCGGTTCTCTGGAGGAT
GGAGAGAGCACAGTCTGACATCCTGCCAAGCAGCCAGGAGTTGATACGCCCATGGCCCGC
AGGCCTTCCCTCCCCTTCCCTCAGGATGGGATCGAATAGACATGAGAGGCTGGGTTTCAG
CGCTCTGTACCATCCTGAGTAGCAAACAAATCACACTTTGTAGCCAGATTTCTGAATGGA
AAAGTGGAAAATTGAATTCTCTATGGACCTTTTTGGTTTGTGGGGGAGTTTTGGTTGTGT
TTCCTGGTTTTATTTCAGCCAAACATGTCTGCTTTTGATTTTTTTTTTTTTTTTAGGATA
AGTGATATATATATATGTTCGCCTTTTAAATGTAAATGTTTAAAAGTAGGCAATTTATGT
GTTTCCACAACTGACATCTGATGCAGACCTCATTCTCTCCCCCTCTTCCACCCTCCTCTT
TTCCCTCTTTTCATACTCTTGTATTGGTTCTAATAAATGGTTGCTTTTCAAATAAAAAAA
AAAAAAAAAAAA

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

More info

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

Help | Less info


               
               351-615, - strand, RNAz p=0.999913
               

               
               1201-1305, - strand, RNAz p=0.953299
               

               
               1606-1725, + strand, RNAz p=0.710088

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


               
               351-615, - strand, RNAz p=0.999913
               

               
               1201-1305, - strand, RNAz p=0.953299
               

               
               1606-1725, + strand, RNAz p=0.710088

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               351-498, BW960063 full-length enriched swine cDNA library, adult alveolar 
(dbj|BW960063.1|), blast E-value=0, identity=100% 
               

               
               352-615, DA382604 BRTHA2 Homo sapiens cDNA clone BRTHA2016600 5', mRNA 
(dbj|DA382604.1|), blast E-value=0, identity=88.93% 
               

               
               352-615, DA871379 PROST2 Homo sapiens cDNA clone PROST2007841 5', mRNA 
(dbj|DA871379.1|), blast E-value=0, identity=88.93% 
               

               
               352-615, DA915660 SKNSH2 Homo sapiens cDNA clone SKNSH2010749 5', mRNA 
(dbj|DA915660.1|), blast E-value=0, identity=88.93% 
               

               
               351-615, DG14-250h19 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO715404.1|), blast E-value=0, identity=91.58% 
               

               
               352-577, CT020007A10E07 Equine Articular Cartilage cDNA Library Equus 
(gb|CX593990.1|), blast E-value=0, identity=93.83%

Similar Transcript(s): 6 entry(ies)

Help | Less info

PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               351-498, BW960063 full-length enriched swine cDNA library, adult alveolar 
(dbj|BW960063.1|), blast E-value=0, identity=100% 
               

               
               352-615, DA382604 BRTHA2 Homo sapiens cDNA clone BRTHA2016600 5', mRNA 
(dbj|DA382604.1|), blast E-value=0, identity=88.93% 
               

               
               352-615, DA871379 PROST2 Homo sapiens cDNA clone PROST2007841 5', mRNA 
(dbj|DA871379.1|), blast E-value=0, identity=88.93% 
               

               
               352-615, DA915660 SKNSH2 Homo sapiens cDNA clone SKNSH2010749 5', mRNA 
(dbj|DA915660.1|), blast E-value=0, identity=88.93% 
               

               
               351-615, DG14-250h19 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO715404.1|), blast E-value=0, identity=91.58% 
               

               
               352-577, CT020007A10E07 Equine Articular Cartilage cDNA Library Equus 
(gb|CX593990.1|), blast E-value=0, identity=93.83%

Aligned organism(s): 3 entry(ies)

More info

Aligned organism(s): 3 entry(ies)

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               1-1914, gnl|bosTau2|chr5 (16569636-16571495)
               

               
               1-1914, gnl|Hg17|chr12 (52912925-52910995)
               

               
               1-1914, gnl|Mm7|chr15 (103181070-103179306)

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


               
               1-1914, gnl|bosTau2|chr5 (16569636-16571495)
               

               
               1-1914, gnl|Hg17|chr12 (52912925-52910995)
               

               
               1-1914, gnl|Mm7|chr15 (103181070-103179306)

Expressed library(ies): 24 entry(ies)

More info

Expressed library(ies): 24 entry(ies)

Help | Less info


               
               mas (0.630915)
               

               
               ebs (0.591506)
               

               
               fty (0.527519)
               

               
               ece (0.45861)
               

               
               pla (0.401016)
               

               
               cty (0.31224)
               

               
               hyp (0.285673)
               

               
               pty (0.285429)
               

               
               nca (0.273748)
               

               
               fce (0.271592)
               

               
               pgl (0.236967)
               

               
               nbm (0.198649)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               ton (0.1755)
               

               
               csk (0.140746)
               

               
               che (0.136314)
               

               
               ssp (0.13552)
               

               
               nmm (0.132802)
               

               
               sug (0.127291)
               

               
               tra (0.123092)
               

               
               cly (0.120642)
               

               
               eru (0.120048)
               

               
               eje (0.0988338)

Expressed library(ies): 24 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 (0.630915)
               

               
               ebs (0.591506)
               

               
               fty (0.527519)
               

               
               ece (0.45861)
               

               
               pla (0.401016)
               

               
               cty (0.31224)
               

               
               hyp (0.285673)
               

               
               pty (0.285429)
               

               
               nca (0.273748)
               

               
               fce (0.271592)
               

               
               pgl (0.236967)
               

               
               nbm (0.198649)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               ton (0.1755)
               

               
               csk (0.140746)
               

               
               che (0.136314)
               

               
               ssp (0.13552)
               

               
               nmm (0.132802)
               

               
               sug (0.127291)
               

               
               tra (0.123092)
               

               
               cly (0.120642)
               

               
               eru (0.120048)
               

               
               eje (0.0988338)

	351-615, - strand, RNAz p=0.999913
	1201-1305, - strand, RNAz p=0.953299
	1606-1725, + strand, RNAz p=0.710088

	351-498, BW960063 full-length enriched swine cDNA library, adult alveolar (dbj\|BW960063.1\|), blast E-value=0, identity=100%
	352-615, DA382604 BRTHA2 Homo sapiens cDNA clone BRTHA2016600 5', mRNA (dbj\|DA382604.1\|), blast E-value=0, identity=88.93%
	352-615, DA871379 PROST2 Homo sapiens cDNA clone PROST2007841 5', mRNA (dbj\|DA871379.1\|), blast E-value=0, identity=88.93%
	352-615, DA915660 SKNSH2 Homo sapiens cDNA clone SKNSH2010749 5', mRNA (dbj\|DA915660.1\|), blast E-value=0, identity=88.93%
	351-615, DG14-250h19 DG14-muscle Canis familiaris cDNA 3', mRNA sequence (gb\|CO715404.1\|), blast E-value=0, identity=91.58%
	352-577, CT020007A10E07 Equine Articular Cartilage cDNA Library Equus (gb\|CX593990.1\|), blast E-value=0, identity=93.83%

	1-1914, gnl\|bosTau2\|chr5 (16569636-16571495)
	1-1914, gnl\|Hg17\|chr12 (52912925-52910995)
	1-1914, gnl\|Mm7\|chr15 (103181070-103179306)

	mas (0.630915)
	ebs (0.591506)
	fty (0.527519)
	ece (0.45861)
	pla (0.401016)
	cty (0.31224)
	hyp (0.285673)
	pty (0.285429)
	nca (0.273748)
	fce (0.271592)
	pgl (0.236967)
	nbm (0.198649)
	col (0.195008)
	nep (0.183925)
	ton (0.1755)
	csk (0.140746)
	che (0.136314)
	ssp (0.13552)
	nmm (0.132802)
	sug (0.127291)
	tra (0.123092)
	cly (0.120642)
	eru (0.120048)
	eje (0.0988338)