Non-Coding RNA Search

Ss1.1-rsug16_e20.5

Sequence:


               
               GGTGGACTTATTGGCTACCAAAGAGATGCAATTGATGATGAAAAGCATGGTCCCTCCTTT
CTTGTAACCAAAGTTGATCTTAATTGCAATTTGACATCCTTCCCTTGGTAGGGATAGATT
TTCTTTGGATCTTGAGTGCTCTCTTAAATGGCAAATTAAGTTGAAAAAATACTGCCAATC
CAGTCCCCTCACTTGTCCTCCAGTGAATCGTGTATCAGTCTCCATATGCCCACAGCAGCG
ACGGTCCAGGTCTGGTGGCTTTCCTGTGCACACTGTTGCCAGATTTCATTTTTTTAGGCA
GAGGTTCTGCACTGGAGTGTAGAGAGCTGAAACGGTACCACCTACAGAGGCTGTGTGTTC
TCTCTCCCCGCCCCACCCCGTCACCTTTTTCTTTCCCTATTCAAAACAGCCAAGTCTGTT
CCTGTATTTTGAATCTTAGAAAAAAGAGAGAAGTGGCTGTTTTGAGTGGTCAGTTCTTTG
TAGAAAGGAGAAAATATAATTGTATTTTTTTACTGGCCTACTTCTAAGTGTCACTGCCTT
GGATTTTCTCTTTTTCAAGGATTAGAACTAGGAGGACACAACCAGCCCTCAGAAACCTGG
TAGCTGGGTACTGAACATGGGAACTGTGTGTCAACAGCCCAAGCCCCCAGGGGGTGTTCC
TGCCTGGGGGCCCCTCAGCCCCTTGGGAGATTGAGGATAATGACCAAATTCATCCAAAAC
TGCTGCAGGGTAAGGCAGAGCCTCTGTCGGTGTTCTGCAGGAGAACCTTCGTGCATTACA
AAGTTTCTGCTCAGTACAGAATGGTCCCCATCACCCGAAGAGCGCTGTTGGAGATGCTAT
AAAATTAAAACCAGTGATGCCGCCCCTTTGTATCTGAGGCATCTAGATTCACCGAAGCAG
ACCGGAGGGAAATTTGTGACTTGTAAGAAAGGGCTAGACAACCAGAAGGAATTTTCTAGA
TATGCTCAGCCTGACACAAGGAGACTGGCTTTGATCTGTTTTCTAATAGTATCTTCTAGC
AAGTTGGAAGTCTCATGGGTAACACTGCAGTTCCCTTGGTTCAGTTGCCTGACAGTGATT
TTAAATGTCCCTTTTTCTGGATCCTTTGTAAACATGAAATCATTCCATGGATGGCTGCCT
TATAATTTTGTCTCTTTCCACTTTAATTGTGAACAGTTAAAAAAACATTTTTTTGGCTGT
TTTCTGATTTATGATATTAAATTTTTATTAGTGCAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGTGGACTTATTGGCTACCAAAGAGATGCAATTGATGATGAAAAGCATGGTCCCTCCTTT
CTTGTAACCAAAGTTGATCTTAATTGCAATTTGACATCCTTCCCTTGGTAGGGATAGATT
TTCTTTGGATCTTGAGTGCTCTCTTAAATGGCAAATTAAGTTGAAAAAATACTGCCAATC
CAGTCCCCTCACTTGTCCTCCAGTGAATCGTGTATCAGTCTCCATATGCCCACAGCAGCG
ACGGTCCAGGTCTGGTGGCTTTCCTGTGCACACTGTTGCCAGATTTCATTTTTTTAGGCA
GAGGTTCTGCACTGGAGTGTAGAGAGCTGAAACGGTACCACCTACAGAGGCTGTGTGTTC
TCTCTCCCCGCCCCACCCCGTCACCTTTTTCTTTCCCTATTCAAAACAGCCAAGTCTGTT
CCTGTATTTTGAATCTTAGAAAAAAGAGAGAAGTGGCTGTTTTGAGTGGTCAGTTCTTTG
TAGAAAGGAGAAAATATAATTGTATTTTTTTACTGGCCTACTTCTAAGTGTCACTGCCTT
GGATTTTCTCTTTTTCAAGGATTAGAACTAGGAGGACACAACCAGCCCTCAGAAACCTGG
TAGCTGGGTACTGAACATGGGAACTGTGTGTCAACAGCCCAAGCCCCCAGGGGGTGTTCC
TGCCTGGGGGCCCCTCAGCCCCTTGGGAGATTGAGGATAATGACCAAATTCATCCAAAAC
TGCTGCAGGGTAAGGCAGAGCCTCTGTCGGTGTTCTGCAGGAGAACCTTCGTGCATTACA
AAGTTTCTGCTCAGTACAGAATGGTCCCCATCACCCGAAGAGCGCTGTTGGAGATGCTAT
AAAATTAAAACCAGTGATGCCGCCCCTTTGTATCTGAGGCATCTAGATTCACCGAAGCAG
ACCGGAGGGAAATTTGTGACTTGTAAGAAAGGGCTAGACAACCAGAAGGAATTTTCTAGA
TATGCTCAGCCTGACACAAGGAGACTGGCTTTGATCTGTTTTCTAATAGTATCTTCTAGC
AAGTTGGAAGTCTCATGGGTAACACTGCAGTTCCCTTGGTTCAGTTGCCTGACAGTGATT
TTAAATGTCCCTTTTTCTGGATCCTTTGTAAACATGAAATCATTCCATGGATGGCTGCCT
TATAATTTTGTCTCTTTCCACTTTAATTGTGAACAGTTAAAAAAACATTTTTTTGGCTGT
TTTCTGATTTATGATATTAAATTTTTATTAGTGCAAAAAAAAAAAAAA

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

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

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               376-488, - strand, RNAz p=0.981087
               

               
               589-780, - strand, RNAz p=0.857958

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


               
               376-488, - strand, RNAz p=0.981087
               

               
               589-780, - strand, RNAz p=0.857958

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               353-427, - strand, RNAmicro p=0.98382
               

               
               404-483, + strand, RNAmicro p=0.958651

Predicted microRNA(s): 2 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               353-427, - strand, RNAmicro p=0.98382
               

               
               404-483, + strand, RNAmicro p=0.958651

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               381-487, 4108819 BARC 9BOV Bos taurus cDNA clone 9BOV35_O18 5', mRNA 
(gb|CK977434.1|), blast E-value=2e-36, identity=94.44% 
               

               
               381-487, 4110011 BARC 9BOV Bos taurus cDNA clone 9BOV38_A10 5', mRNA 
(gb|CK978754.1|), blast E-value=2e-36, identity=94.44% 
               

               
               376-482, EST001315 brain and spinal cord cDNA library in Gecko Gekko 
(gb|CV827017.1|), blast E-value=0, identity=100% 
               

               
               381-487, 010127BEMN061742HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY125592.1|), blast E-value=2e-36, identity=94.44% 
               

               
               381-487, 1615792 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|EB726696.1|), 
blast E-value=2e-36, identity=94.44% 
               

               
               381-487, LB02748.CR_N15 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|EE347984.1|), 
blast E-value=2e-36, identity=94.44%

Similar Transcript(s): 6 entry(ies)

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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


               
               381-487, 4108819 BARC 9BOV Bos taurus cDNA clone 9BOV35_O18 5', mRNA 
(gb|CK977434.1|), blast E-value=2e-36, identity=94.44% 
               

               
               381-487, 4110011 BARC 9BOV Bos taurus cDNA clone 9BOV38_A10 5', mRNA 
(gb|CK978754.1|), blast E-value=2e-36, identity=94.44% 
               

               
               376-482, EST001315 brain and spinal cord cDNA library in Gecko Gekko 
(gb|CV827017.1|), blast E-value=0, identity=100% 
               

               
               381-487, 010127BEMN061742HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY125592.1|), blast E-value=2e-36, identity=94.44% 
               

               
               381-487, 1615792 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|EB726696.1|), 
blast E-value=2e-36, identity=94.44% 
               

               
               381-487, LB02748.CR_N15 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|EE347984.1|), 
blast E-value=2e-36, identity=94.44%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               184-1235, gnl|bosTau2|chr10 (55748482-55749531)
               

               
               184-1235, gnl|Hg17|chr14 (68997785-68998852)

Aligned organism(s): 2 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


               
               184-1235, gnl|bosTau2|chr10 (55748482-55749531)
               

               
               184-1235, gnl|Hg17|chr14 (68997785-68998852)

Expressed library(ies): 17 entry(ies)

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Expressed library(ies): 17 entry(ies)

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               csk (0.281492)
               

               
               pgl (0.236967)
               

               
               cmu (0.186393)
               

               
               cje (0.165235)
               

               
               cki (0.165235)
               

               
               fco (0.157208)
               

               
               cst (0.140036)
               

               
               che (0.136314)
               

               
               pla (0.133672)
               

               
               cov (0.132153)
               

               
               ova (0.129132)
               

               
               sug (0.127291)
               

               
               bla (0.124347)
               

               
               tra (0.123092)
               

               
               eep (0.122564)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)

Expressed library(ies): 17 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


               
               csk (0.281492)
               

               
               pgl (0.236967)
               

               
               cmu (0.186393)
               

               
               cje (0.165235)
               

               
               cki (0.165235)
               

               
               fco (0.157208)
               

               
               cst (0.140036)
               

               
               che (0.136314)
               

               
               pla (0.133672)
               

               
               cov (0.132153)
               

               
               ova (0.129132)
               

               
               sug (0.127291)
               

               
               bla (0.124347)
               

               
               tra (0.123092)
               

               
               eep (0.122564)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)

	376-488, - strand, RNAz p=0.981087
	589-780, - strand, RNAz p=0.857958

	353-427, - strand, RNAmicro p=0.98382
	404-483, + strand, RNAmicro p=0.958651

	381-487, 4108819 BARC 9BOV Bos taurus cDNA clone 9BOV35_O18 5', mRNA (gb\|CK977434.1\|), blast E-value=2e-36, identity=94.44%
	381-487, 4110011 BARC 9BOV Bos taurus cDNA clone 9BOV38_A10 5', mRNA (gb\|CK978754.1\|), blast E-value=2e-36, identity=94.44%
	376-482, EST001315 brain and spinal cord cDNA library in Gecko Gekko (gb\|CV827017.1\|), blast E-value=0, identity=100%
	381-487, 010127BEMN061742HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY125592.1\|), blast E-value=2e-36, identity=94.44%
	381-487, 1615792 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb\|EB726696.1\|), blast E-value=2e-36, identity=94.44%
	381-487, LB02748.CR_N15 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|EE347984.1\|), blast E-value=2e-36, identity=94.44%

	184-1235, gnl\|bosTau2\|chr10 (55748482-55749531)
	184-1235, gnl\|Hg17\|chr14 (68997785-68998852)

	csk (0.281492)
	pgl (0.236967)
	cmu (0.186393)
	cje (0.165235)
	cki (0.165235)
	fco (0.157208)
	cst (0.140036)
	che (0.136314)
	pla (0.133672)
	cov (0.132153)
	ova (0.129132)
	sug (0.127291)
	bla (0.124347)
	tra (0.123092)
	eep (0.122564)
	ebs (0.118301)
	jca (0.11396)