Non-Coding RNA Search

Ss1.1-Pig4-TMW8046M03.5

Sequence:


               
               GGGACACGCAAGGCGAGCCCTGCGTCTTTGCTCCACATTCTTTCTCAGATACTCACAGTA
TCTACCACAAGCCACAGCTTGTAGATTGTGTGTTGTTCCAGCTTCTCACTTAGAGGTGGA
AGTGGAGAGCGGGCGATCTGTGCCTCGTCTAAAGTTGTCGTGACACAGGAGACACTGGTG
ATGAGAGTATAATTGTTTTTCCTCTATTTAATGTAAAAACCTGTGATATATTATATTTAA
AGCGTTGCATTGAACATGGGTATTTTGCCGTGGTGCTTCCATTCACTCTCACAGCTTGGA
GGCTTGGGGAAGCAGTGACCAGTATGTGAATGGCTTGGTTGCGTCAGTGTCACACCACTG
CCGCGGAAGCAGGACATTATATTGCTTTCAGAATCAACTCATGGAGTTCCTTTCAGCATT
CAGTGTGCCCACTAAATGCCAGCCACCCCTCCGCTTCCCTCTTGTTGTCCTATTTTTATA
TATTTTTCTAAAGATATGTATATACTTAGTACATAGAAAATAGAATTTTTATGTTGTGAC
ATAAGGAAGATGGTAAAAAGACCACATTAAAAAAAAATGCAGTGATCAAAATTTTCATCC
ACCATGGTTCTTAAAGAGGTCAGGATTTTAATGATCTTGTGGATTATCCAGACTGAATTA
GTATATATGAAATACCCCTTCTTTGATGCCATGTCACAAAATTGTTGAATAGCCTTTTTA
AGAATTTCAACCTAAATCTTGGATCTTGTTACCTCCTAAGGGAACTTGAGGGACATTTAA
ATACTGTTAACTTGAATGCATAGAGAAGCGCCCCCAAAATTTATAGAAACAATTTCTGAA
GAAACCAAAACAAAAACCTTTACAGTATTAAGCTTCTTAGTTTCCTCTTTGCTGAATATA
TCACTACATCAAAATACTAACAGTCTGCCTAATGTTATTAACTGCACATTTCTCAGGCAT
TCAATGAATGGGATTTTTTGTTTTAAGTTGAATACCCGTCTGAACATTTTGTCTCCATCA
GAATTCAGTAACGCAGAGGCTGCAAAATTAGTTTCATAATGGCTATTGTGATGATAAAAT
GCAGTTCATGTTTTTCTATGCTACAGGGCCCAAATATTCTTTATAAAGAAAATAGAAAGG
GGCAACCAAAACAGTTACTGTGTTTATTATTTTCTAGTGGTATTAGAAAAAATATTCTAT
TTTTTATTCAGTACTACGTCATTACTCGTGATAGCAAATGGTGGTAACGACAGGTTTTCC
CAAATTGGCATGGGGTGGACAGTTCAGTATATGCCAGTGGACTTGCTTAATAAACTATTT
TTGAATGTCAGTGGTATACGCTTTCAAGTTAGCAAGTTACCAAGCTTTTCATCAAGGAAC
CTGTGATACTAAATTACTATTTATTCATAACTAAAATGATTGGATGCTAATAATAATCTT
TTGCTCCCTACAATTCATTATTTGGTAACTGTATTGGACTCTTGCTGTATTTGTGTTTTA
TTCTCATGTGAATATATGTCACCATTTGGAAAACAATTTGTCGTTCAACCTGGTTAAAAA
TACCAGGAGACTATTATAGATGCCAAATATTCTTTATTCAGGACAATGTAACATCACTGA
TGATATGTGATAAGGTTAAATTTTTTTGGATGATATATATTTTATTTACAAAATATTATA
CACTGTTGGTATTACCATATGAAAAGAAATAAAGTCAATTGATAATTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGGACACGCAAGGCGAGCCCTGCGTCTTTGCTCCACATTCTTTCTCAGATACTCACAGTA
TCTACCACAAGCCACAGCTTGTAGATTGTGTGTTGTTCCAGCTTCTCACTTAGAGGTGGA
AGTGGAGAGCGGGCGATCTGTGCCTCGTCTAAAGTTGTCGTGACACAGGAGACACTGGTG
ATGAGAGTATAATTGTTTTTCCTCTATTTAATGTAAAAACCTGTGATATATTATATTTAA
AGCGTTGCATTGAACATGGGTATTTTGCCGTGGTGCTTCCATTCACTCTCACAGCTTGGA
GGCTTGGGGAAGCAGTGACCAGTATGTGAATGGCTTGGTTGCGTCAGTGTCACACCACTG
CCGCGGAAGCAGGACATTATATTGCTTTCAGAATCAACTCATGGAGTTCCTTTCAGCATT
CAGTGTGCCCACTAAATGCCAGCCACCCCTCCGCTTCCCTCTTGTTGTCCTATTTTTATA
TATTTTTCTAAAGATATGTATATACTTAGTACATAGAAAATAGAATTTTTATGTTGTGAC
ATAAGGAAGATGGTAAAAAGACCACATTAAAAAAAAATGCAGTGATCAAAATTTTCATCC
ACCATGGTTCTTAAAGAGGTCAGGATTTTAATGATCTTGTGGATTATCCAGACTGAATTA
GTATATATGAAATACCCCTTCTTTGATGCCATGTCACAAAATTGTTGAATAGCCTTTTTA
AGAATTTCAACCTAAATCTTGGATCTTGTTACCTCCTAAGGGAACTTGAGGGACATTTAA
ATACTGTTAACTTGAATGCATAGAGAAGCGCCCCCAAAATTTATAGAAACAATTTCTGAA
GAAACCAAAACAAAAACCTTTACAGTATTAAGCTTCTTAGTTTCCTCTTTGCTGAATATA
TCACTACATCAAAATACTAACAGTCTGCCTAATGTTATTAACTGCACATTTCTCAGGCAT
TCAATGAATGGGATTTTTTGTTTTAAGTTGAATACCCGTCTGAACATTTTGTCTCCATCA
GAATTCAGTAACGCAGAGGCTGCAAAATTAGTTTCATAATGGCTATTGTGATGATAAAAT
GCAGTTCATGTTTTTCTATGCTACAGGGCCCAAATATTCTTTATAAAGAAAATAGAAAGG
GGCAACCAAAACAGTTACTGTGTTTATTATTTTCTAGTGGTATTAGAAAAAATATTCTAT
TTTTTATTCAGTACTACGTCATTACTCGTGATAGCAAATGGTGGTAACGACAGGTTTTCC
CAAATTGGCATGGGGTGGACAGTTCAGTATATGCCAGTGGACTTGCTTAATAAACTATTT
TTGAATGTCAGTGGTATACGCTTTCAAGTTAGCAAGTTACCAAGCTTTTCATCAAGGAAC
CTGTGATACTAAATTACTATTTATTCATAACTAAAATGATTGGATGCTAATAATAATCTT
TTGCTCCCTACAATTCATTATTTGGTAACTGTATTGGACTCTTGCTGTATTTGTGTTTTA
TTCTCATGTGAATATATGTCACCATTTGGAAAACAATTTGTCGTTCAACCTGGTTAAAAA
TACCAGGAGACTATTATAGATGCCAAATATTCTTTATTCAGGACAATGTAACATCACTGA
TGATATGTGATAAGGTTAAATTTTTTTGGATGATATATATTTTATTTACAAAATATTATA
CACTGTTGGTATTACCATATGAAAAGAAATAAAGTCAATTGATAATTG

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

More info

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

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               325-519, - strand, RNAz p=0.9957

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


               
               325-519, - strand, RNAz p=0.9957

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               477-576, - strand, RNAmicro p=0.914849

Predicted microRNA(s): 1 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


               
               477-576, - strand, RNAmicro p=0.914849

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               419-519, AM031278 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0007409c09 5', 
(emb|AM031278.1|), blast E-value=7e-32, identity=93.07% 
               

               
               419-519, EST281 Bovine Lambda Zap Express corpus luteum cDNA library Bos 
(gb|BU917339.1|), blast E-value=7e-32, identity=93.07% 
               

               
               419-519, 4086287 BARC 9BOV Bos taurus cDNA clone 9BOV31_D24 5', mRNA 
(gb|CK970562.1|), blast E-value=7e-32, identity=93.07% 
               

               
               419-519, 4110183 BARC 9BOV Bos taurus cDNA clone 9BOV38_H14 5', mRNA 
(gb|CK978655.1|), blast E-value=7e-32, identity=93.07% 
               

               
               416-519, LB02625.CR_M21 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV882964.1|), 
blast E-value=3e-31, identity=92.31% 
               

               
               416-519, LB03091.CR_M03 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE389021.1|), 
blast E-value=3e-31, identity=92.31%

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


               
               419-519, AM031278 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0007409c09 5', 
(emb|AM031278.1|), blast E-value=7e-32, identity=93.07% 
               

               
               419-519, EST281 Bovine Lambda Zap Express corpus luteum cDNA library Bos 
(gb|BU917339.1|), blast E-value=7e-32, identity=93.07% 
               

               
               419-519, 4086287 BARC 9BOV Bos taurus cDNA clone 9BOV31_D24 5', mRNA 
(gb|CK970562.1|), blast E-value=7e-32, identity=93.07% 
               

               
               419-519, 4110183 BARC 9BOV Bos taurus cDNA clone 9BOV38_H14 5', mRNA 
(gb|CK978655.1|), blast E-value=7e-32, identity=93.07% 
               

               
               416-519, LB02625.CR_M21 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV882964.1|), 
blast E-value=3e-31, identity=92.31% 
               

               
               416-519, LB03091.CR_M03 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE389021.1|), 
blast E-value=3e-31, identity=92.31%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               15-621, gnl|bosTau2|chr17 (24174334-24174948)
               

               
               15-621, gnl|Hg17|chr12 (27737107-27737717)
               

               
               15-621, gnl|Mm7|chr6 (147108744-147109266)
               


               
               638-1728, gnl|bosTau2|chr17 (24174987-24176071)
               

               
               638-1728, gnl|Hg17|chr12 (27737751-27739759)
               

               
               638-1728, gnl|Mm7|chr6 (147109304-147110343)

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


               
               15-621, gnl|bosTau2|chr17 (24174334-24174948)
               

               
               15-621, gnl|Hg17|chr12 (27737107-27737717)
               

               
               15-621, gnl|Mm7|chr6 (147108744-147109266)
               


               
               638-1728, gnl|bosTau2|chr17 (24174987-24176071)
               

               
               638-1728, gnl|Hg17|chr12 (27737751-27739759)
               

               
               638-1728, gnl|Mm7|chr6 (147109304-147110343)

Expressed library(ies): 27 entry(ies)

More info

Expressed library(ies): 27 entry(ies)

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               cbr (0.639877)
               

               
               aor (0.585823)
               

               
               gul (0.532765)
               

               
               isp (0.451128)
               

               
               bfe (0.449573)
               

               
               hea (0.408998)
               

               
               sag (0.36543)
               

               
               vin (0.332557)
               

               
               tbr (0.308356)
               

               
               liv (0.292569)
               

               
               lin (0.291206)
               

               
               lyg (0.266205)
               

               
               kid (0.259471)
               

               
               eru (0.240096)
               

               
               cbe (0.239234)
               

               
               fbs (0.175346)
               

               
               sin (0.174948)
               

               
               eye (0.170503)
               

               
               mga (0.160205)
               

               
               fco (0.157208)
               

               
               hlv (0.139256)
               

               
               ssp (0.13552)
               

               
               ova (0.129132)
               

               
               sug (0.127291)
               

               
               tra (0.123092)
               

               
               jca (0.11396)
               

               
               ldo (0.0970026)

Expressed library(ies): 27 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


               
               cbr (0.639877)
               

               
               aor (0.585823)
               

               
               gul (0.532765)
               

               
               isp (0.451128)
               

               
               bfe (0.449573)
               

               
               hea (0.408998)
               

               
               sag (0.36543)
               

               
               vin (0.332557)
               

               
               tbr (0.308356)
               

               
               liv (0.292569)
               

               
               lin (0.291206)
               

               
               lyg (0.266205)
               

               
               kid (0.259471)
               

               
               eru (0.240096)
               

               
               cbe (0.239234)
               

               
               fbs (0.175346)
               

               
               sin (0.174948)
               

               
               eye (0.170503)
               

               
               mga (0.160205)
               

               
               fco (0.157208)
               

               
               hlv (0.139256)
               

               
               ssp (0.13552)
               

               
               ova (0.129132)
               

               
               sug (0.127291)
               

               
               tra (0.123092)
               

               
               jca (0.11396)
               

               
               ldo (0.0970026)

	419-519, AM031278 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0007409c09 5', (emb\|AM031278.1\|), blast E-value=7e-32, identity=93.07%
	419-519, EST281 Bovine Lambda Zap Express corpus luteum cDNA library Bos (gb\|BU917339.1\|), blast E-value=7e-32, identity=93.07%
	419-519, 4086287 BARC 9BOV Bos taurus cDNA clone 9BOV31_D24 5', mRNA (gb\|CK970562.1\|), blast E-value=7e-32, identity=93.07%
	419-519, 4110183 BARC 9BOV Bos taurus cDNA clone 9BOV38_H14 5', mRNA (gb\|CK978655.1\|), blast E-value=7e-32, identity=93.07%
	416-519, LB02625.CR_M21 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV882964.1\|), blast E-value=3e-31, identity=92.31%
	416-519, LB03091.CR_M03 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE389021.1\|), blast E-value=3e-31, identity=92.31%

	15-621, gnl\|bosTau2\|chr17 (24174334-24174948)
	15-621, gnl\|Hg17\|chr12 (27737107-27737717)
	15-621, gnl\|Mm7\|chr6 (147108744-147109266)

	638-1728, gnl\|bosTau2\|chr17 (24174987-24176071)
	638-1728, gnl\|Hg17\|chr12 (27737751-27739759)
	638-1728, gnl\|Mm7\|chr6 (147109304-147110343)

	cbr (0.639877)
	aor (0.585823)
	gul (0.532765)
	isp (0.451128)
	bfe (0.449573)
	hea (0.408998)
	sag (0.36543)
	vin (0.332557)
	tbr (0.308356)
	liv (0.292569)
	lin (0.291206)
	lyg (0.266205)
	kid (0.259471)
	eru (0.240096)
	cbe (0.239234)
	fbs (0.175346)
	sin (0.174948)
	eye (0.170503)
	mga (0.160205)
	fco (0.157208)
	hlv (0.139256)
	ssp (0.13552)
	ova (0.129132)
	sug (0.127291)
	tra (0.123092)
	jca (0.11396)
	ldo (0.0970026)