Non-Coding RNA Search

Ss1.1-Pig3-SRG8016D02.3

Sequence:


               
               GAGTGCAGTCTTTGAGATTTGCCCTGAGTCCGTTGCCCAAGTAATAAGCGCTGGCATCCC
ACTTCTTCCTGTGTGGGAGCCCCCAGCTCTCTTCTACAGGTAATGATGAGAATGAGACTC
AATCATTGCCTAAGCCTCAGAAATCCACCAAGTGGCTGCAGGTATTTGGGTCTTCTTCTC
TCCCCCTCCCCTACCCCTCATACTTGCTAGTCTATCCTCTGAGAGTTCTGCTGGTTGCAA
ACTTGCTAGTCTTTGTACAGAACACATTTCAGAACAGCAGAATGAGTCTCCGGTCAGGAA
GCAGGGCTCTGCTGGGTTTGGGCTACTGTAAGCTCATCTCCACTGGGCCTCAGTTTCCAT
GTAGCTGAGGGAGCCACAGACCCAGATGGATCAGATGGTTGAGTTTTTGCTTCTCGCTAT
GTTTCCTTGAAGTTAATTCTTTCTTACAGGTCCTTTCATCTTCCACAAACAGCCCACTCT
TTCTGCCCTTAATTTAAATCCCTCAGATAATTAGGTTCATGAAGAGTGTGACATACTCCT
GAATTATGTTAGGACTTAGACCAGAGATGGCAAATGAATGGCACATCATTTCCTCTCTTC
CCCCATGGTAGGTACCACTGATTTGCTTCAGAGTATTTCTTGCTCAATCCCTGGTATATC
CTCATTTCTCAAGATCCCCCCAGCAGCCCGTGTCAGTGTTGACATCCCTATTTGCCAGCC
CTGGCTGAGATCCTACTCTGCTGAGGAACAGAAGAACTGCCCGCCCCATTCAGGGTTTGC
TGGGCCAAGGAAGCACAGGGAAGAGGCAGAAGTTCCTGCCTGCGCCCTTCAGGGAGAGCA
GGAAGGCCTGCAGTGGCCCACATGATTGCCCGCCTCACTTCAGCTACCTCGTAAAGCCCA
TGGTTTTGGCGGGGAGGGGCTGTTGGAGCCCAGCGTGAGGGTGGGGAATCAGCCGCACGG
CGCAGCAGCCCTCTGAAAGCAAGCCTAGCTGCTGTGGAGCTGCAGTGAGCGAGGTAGAAG
CTCTGCTCTCAGCTCCAGCCTTATGCCTGTAGGCATCCAAGCCAGACTGTAGGTGGGGGT
CCCATCCTTCCTCTCCATTGACCAAATCTTATCAATCACTACAGCTGCTCTGCTTGCTCT
GCTTTCCAAAGTCAGCCCAGGTTCCTGGGTGCTGCCCACACCAGCCAGGATCCTGGGCCA
GATGAAAGGGAGGTGGCCTGTCCATGAATGAAGGCCAGTTCCTTCCTCACTGGGCAGGTC
TTAGGCACGTGACCTCAGTTTTAGGACCAAGAGCTGTGTTGGTTTCTTAGGTTGCTAGCT
TTTCCTCCAGGGGACCACTGCAGGTGAGGCTCTGCTGACAGCAGTTTGTATTCAGGGTCT
TGTCCAGCTGAGCATAGCGCTTCATGCACACCAGATTCTGAGAGGTGTCAGCAGCACTTT
TTAATATTTGTTTTCCATGAGGTTTTTGGACCATGGGCTGAGCTCAGGCACTTTCTGTAA
GAGAATGTTACGTCTGTAAAGATGGTTATTTTTCCTCCTCCACCCCCATCGTGGTGGCCC
TGCAGAGGGCTGACCAAAAGGCCAGTGGAGCTGCCCTGGTGTCCATGGGGGAGGGCCGAG
GCCTGCTGAGTTGGTTCTCCAGCCGCTGCTCTAGCCCTCCCACCTTGCACAGCGCAGAGG
AGCTCACCCCGGGGACAGCCAGGCACCTGCCTGGGGGAGGGGTGCTGCCTTCTGTCCCTG
TAACTGCTTCCCTTATGGCCCAGCCTGGCCGTCCAGATTTGTTTGAAGCTGTGCTGACAG
CATTTTTGTCTCCTTTTGGTATTCACAACAGCCAGGGACTTGATTTTGATGTATTTTAAA
ACCACATTAAATAAAGAGTCTGTTGCCTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGTGCAGTCTTTGAGATTTGCCCTGAGTCCGTTGCCCAAGTAATAAGCGCTGGCATCCC
ACTTCTTCCTGTGTGGGAGCCCCCAGCTCTCTTCTACAGGTAATGATGAGAATGAGACTC
AATCATTGCCTAAGCCTCAGAAATCCACCAAGTGGCTGCAGGTATTTGGGTCTTCTTCTC
TCCCCCTCCCCTACCCCTCATACTTGCTAGTCTATCCTCTGAGAGTTCTGCTGGTTGCAA
ACTTGCTAGTCTTTGTACAGAACACATTTCAGAACAGCAGAATGAGTCTCCGGTCAGGAA
GCAGGGCTCTGCTGGGTTTGGGCTACTGTAAGCTCATCTCCACTGGGCCTCAGTTTCCAT
GTAGCTGAGGGAGCCACAGACCCAGATGGATCAGATGGTTGAGTTTTTGCTTCTCGCTAT
GTTTCCTTGAAGTTAATTCTTTCTTACAGGTCCTTTCATCTTCCACAAACAGCCCACTCT
TTCTGCCCTTAATTTAAATCCCTCAGATAATTAGGTTCATGAAGAGTGTGACATACTCCT
GAATTATGTTAGGACTTAGACCAGAGATGGCAAATGAATGGCACATCATTTCCTCTCTTC
CCCCATGGTAGGTACCACTGATTTGCTTCAGAGTATTTCTTGCTCAATCCCTGGTATATC
CTCATTTCTCAAGATCCCCCCAGCAGCCCGTGTCAGTGTTGACATCCCTATTTGCCAGCC
CTGGCTGAGATCCTACTCTGCTGAGGAACAGAAGAACTGCCCGCCCCATTCAGGGTTTGC
TGGGCCAAGGAAGCACAGGGAAGAGGCAGAAGTTCCTGCCTGCGCCCTTCAGGGAGAGCA
GGAAGGCCTGCAGTGGCCCACATGATTGCCCGCCTCACTTCAGCTACCTCGTAAAGCCCA
TGGTTTTGGCGGGGAGGGGCTGTTGGAGCCCAGCGTGAGGGTGGGGAATCAGCCGCACGG
CGCAGCAGCCCTCTGAAAGCAAGCCTAGCTGCTGTGGAGCTGCAGTGAGCGAGGTAGAAG
CTCTGCTCTCAGCTCCAGCCTTATGCCTGTAGGCATCCAAGCCAGACTGTAGGTGGGGGT
CCCATCCTTCCTCTCCATTGACCAAATCTTATCAATCACTACAGCTGCTCTGCTTGCTCT
GCTTTCCAAAGTCAGCCCAGGTTCCTGGGTGCTGCCCACACCAGCCAGGATCCTGGGCCA
GATGAAAGGGAGGTGGCCTGTCCATGAATGAAGGCCAGTTCCTTCCTCACTGGGCAGGTC
TTAGGCACGTGACCTCAGTTTTAGGACCAAGAGCTGTGTTGGTTTCTTAGGTTGCTAGCT
TTTCCTCCAGGGGACCACTGCAGGTGAGGCTCTGCTGACAGCAGTTTGTATTCAGGGTCT
TGTCCAGCTGAGCATAGCGCTTCATGCACACCAGATTCTGAGAGGTGTCAGCAGCACTTT
TTAATATTTGTTTTCCATGAGGTTTTTGGACCATGGGCTGAGCTCAGGCACTTTCTGTAA
GAGAATGTTACGTCTGTAAAGATGGTTATTTTTCCTCCTCCACCCCCATCGTGGTGGCCC
TGCAGAGGGCTGACCAAAAGGCCAGTGGAGCTGCCCTGGTGTCCATGGGGGAGGGCCGAG
GCCTGCTGAGTTGGTTCTCCAGCCGCTGCTCTAGCCCTCCCACCTTGCACAGCGCAGAGG
AGCTCACCCCGGGGACAGCCAGGCACCTGCCTGGGGGAGGGGTGCTGCCTTCTGTCCCTG
TAACTGCTTCCCTTATGGCCCAGCCTGGCCGTCCAGATTTGTTTGAAGCTGTGCTGACAG
CATTTTTGTCTCCTTTTGGTATTCACAACAGCCAGGGACTTGATTTTGATGTATTTTAAA
ACCACATTAAATAAAGAGTCTGTTGCCTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

Help | Less info


               
               658-899, - strand, RNAz p=0.997618
               

               
               1087-1280, - strand, RNAz p=0.998416
               

               
               1594-1703, - strand, RNAz p=0.98414

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


               
               658-899, - strand, RNAz p=0.997618
               

               
               1087-1280, - strand, RNAz p=0.998416
               

               
               1594-1703, - strand, RNAz p=0.98414

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1614-1728, - strand, RNAmicro p=0.977389

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


               
               1614-1728, - strand, RNAmicro p=0.977389

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1087-1280, BP446031 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP446031.1|), blast E-value=0, identity=98.97% 
               

               
               1087-1280, CJ016319 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|CJ016319.1|), blast E-value=0, identity=100% 
               

               
               1092-1280, 1235602 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN285675.1|), 
blast E-value=0, identity=93.68% 
               

               
               1092-1280, Hw_liver_41_050728_B11 Bos taurus CF-24-HW liver cDNA library Bos 
(gb|DV783224.1|), blast E-value=0, identity=93.68% 
               

               
               1092-1280, LB02611.CR_O14 GC_BGC-26 Bos taurus cDNA clone IMAGE 
(gb|DV880041.1|), blast E-value=0, identity=93.68% 
               

               
               1092-1280, 001107BEMN050111HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY136057.1|), blast E-value=0, identity=93.68%

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


               
               1087-1280, BP446031 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP446031.1|), blast E-value=0, identity=98.97% 
               

               
               1087-1280, CJ016319 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|CJ016319.1|), blast E-value=0, identity=100% 
               

               
               1092-1280, 1235602 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN285675.1|), 
blast E-value=0, identity=93.68% 
               

               
               1092-1280, Hw_liver_41_050728_B11 Bos taurus CF-24-HW liver cDNA library Bos 
(gb|DV783224.1|), blast E-value=0, identity=93.68% 
               

               
               1092-1280, LB02611.CR_O14 GC_BGC-26 Bos taurus cDNA clone IMAGE 
(gb|DV880041.1|), blast E-value=0, identity=93.68% 
               

               
               1092-1280, 001107BEMN050111HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY136057.1|), blast E-value=0, identity=93.68%

Aligned organism(s): 5 entry(ies)

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Aligned organism(s): 5 entry(ies)

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               84-1570, gnl|bosTau2|chr2 (73489058-73490535)
               

               
               84-1570, gnl|Hg17|chr1 (32331156-32332692)
               


               
               1594-1890, gnl|bosTau2|chr2 (73490513-73490803)
               

               
               1594-1890, gnl|Hg17|chr1 (32332629-32332979)
               

               
               1594-1890, gnl|Mm7|chr4 (129071034-129070730)

Aligned organism(s): 5 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


               
               84-1570, gnl|bosTau2|chr2 (73489058-73490535)
               

               
               84-1570, gnl|Hg17|chr1 (32331156-32332692)
               


               
               1594-1890, gnl|bosTau2|chr2 (73490513-73490803)
               

               
               1594-1890, gnl|Hg17|chr1 (32332629-32332979)
               

               
               1594-1890, gnl|Mm7|chr4 (129071034-129070730)

Expressed library(ies): 14 entry(ies)

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Expressed library(ies): 14 entry(ies)

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               pty (0.285429)
               

               
               fce (0.271592)
               

               
               eru (0.240096)
               

               
               col (0.195008)
               

               
               nlu (0.191681)
               

               
               fty (0.17584)
               

               
               mcp (0.170648)
               

               
               cli (0.152812)
               

               
               cly (0.120642)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)
               

               
               nbm (0.0993246)
               

               
               jej (0.0989218)

Expressed library(ies): 14 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


               
               pty (0.285429)
               

               
               fce (0.271592)
               

               
               eru (0.240096)
               

               
               col (0.195008)
               

               
               nlu (0.191681)
               

               
               fty (0.17584)
               

               
               mcp (0.170648)
               

               
               cli (0.152812)
               

               
               cly (0.120642)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)
               

               
               nbm (0.0993246)
               

               
               jej (0.0989218)

	658-899, - strand, RNAz p=0.997618
	1087-1280, - strand, RNAz p=0.998416
	1594-1703, - strand, RNAz p=0.98414

	1087-1280, BP446031 full-length enriched swine cDNA library, adult liver Sus (dbj\|BP446031.1\|), blast E-value=0, identity=98.97%
	1087-1280, CJ016319 full-length enriched swine cDNA library, adult spleen Sus (dbj\|CJ016319.1\|), blast E-value=0, identity=100%
	1092-1280, 1235602 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN285675.1\|), blast E-value=0, identity=93.68%
	1092-1280, Hw_liver_41_050728_B11 Bos taurus CF-24-HW liver cDNA library Bos (gb\|DV783224.1\|), blast E-value=0, identity=93.68%
	1092-1280, LB02611.CR_O14 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV880041.1\|), blast E-value=0, identity=93.68%
	1092-1280, 001107BEMN050111HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY136057.1\|), blast E-value=0, identity=93.68%

	84-1570, gnl\|bosTau2\|chr2 (73489058-73490535)
	84-1570, gnl\|Hg17\|chr1 (32331156-32332692)

	1594-1890, gnl\|bosTau2\|chr2 (73490513-73490803)
	1594-1890, gnl\|Hg17\|chr1 (32332629-32332979)
	1594-1890, gnl\|Mm7\|chr4 (129071034-129070730)

	pty (0.285429)
	fce (0.271592)
	eru (0.240096)
	col (0.195008)
	nlu (0.191681)
	fty (0.17584)
	mcp (0.170648)
	cli (0.152812)
	cly (0.120642)
	pgl (0.118483)
	ebs (0.118301)
	jca (0.11396)
	nbm (0.0993246)
	jej (0.0989218)