Non-Coding RNA Search

Ss1.1-rfcc20b_e22.5

Sequence:


               
               AGGACATTGAACCGTTTCCTTCCCCCCGGGGTCACGGGCTGCAGGATATCTTCCGAATCT
GGGGGCCTGGGTCCAGGAGTCTGTTCCTCTCCCCGCCCAGGGCCGGGGTTCTTTTGTTTT
GTTTTGTTTTCGGTGTCTTGTTTTCTTCCTCCTCCGTGCATCTTGGCAGGCTCGCACTTC
TGTGGCCGTCGGCCAAGGGGAATGTTCGGGAGCTGCCAGGAAGGGAGGAGGCTCAGGCTG
GCTAATCCCCGGATGAACGGTGCTCCATCGTCCCCGTCCCTCGTCCTCCGTGTCACAGTG
TTCAGGAGCCCAGAGGAGCCACCTCACCGGAACTCTGCTTTCCCTCGTGTGGCATGTGTC
TCCCCAGGGCCACGCCTCACCTCAGCTGCTGACGTCAGCCCTGTCACCACCTGACTCTGC
GGAACAGACACTTGGAGGCAGGGTCGTGGGGCGGGCGGGGTGGGGGGTGTCGCCGCAGGG
GGCGGGGGCAGGCTCCCCAGATTCTGGTTCCAGTTTCTGTCCCAGGCGCCTGGCGCACGC
AGCCCACCCGGCGCCGGGTGGCAGGAAGCCAGCCCACTTCCGATCAGTCACCGGGGTCCC
CGACCTTAGAAGGGTCCCCGCCCAGATCAGTCTCTCGGACACTAAGGCTCGTTTTAGCGT
CTCTCGTCTTCACGATTATGTCCGTTTGTCCGTTTGTGTTTTCCGCGTCGTGTCATCAGA
TGTAACCCTCAGAAATAACGCACACTAGCCTCTGACAACCATGAAGCCATCCGTTACACG
TGGGTCTGAACTTGTAGACTCGGTTCAACTATCAAATAAATCTATATCAGAAAGTAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGGACATTGAACCGTTTCCTTCCCCCCGGGGTCACGGGCTGCAGGATATCTTCCGAATCT
GGGGGCCTGGGTCCAGGAGTCTGTTCCTCTCCCCGCCCAGGGCCGGGGTTCTTTTGTTTT
GTTTTGTTTTCGGTGTCTTGTTTTCTTCCTCCTCCGTGCATCTTGGCAGGCTCGCACTTC
TGTGGCCGTCGGCCAAGGGGAATGTTCGGGAGCTGCCAGGAAGGGAGGAGGCTCAGGCTG
GCTAATCCCCGGATGAACGGTGCTCCATCGTCCCCGTCCCTCGTCCTCCGTGTCACAGTG
TTCAGGAGCCCAGAGGAGCCACCTCACCGGAACTCTGCTTTCCCTCGTGTGGCATGTGTC
TCCCCAGGGCCACGCCTCACCTCAGCTGCTGACGTCAGCCCTGTCACCACCTGACTCTGC
GGAACAGACACTTGGAGGCAGGGTCGTGGGGCGGGCGGGGTGGGGGGTGTCGCCGCAGGG
GGCGGGGGCAGGCTCCCCAGATTCTGGTTCCAGTTTCTGTCCCAGGCGCCTGGCGCACGC
AGCCCACCCGGCGCCGGGTGGCAGGAAGCCAGCCCACTTCCGATCAGTCACCGGGGTCCC
CGACCTTAGAAGGGTCCCCGCCCAGATCAGTCTCTCGGACACTAAGGCTCGTTTTAGCGT
CTCTCGTCTTCACGATTATGTCCGTTTGTCCGTTTGTGTTTTCCGCGTCGTGTCATCAGA
TGTAACCCTCAGAAATAACGCACACTAGCCTCTGACAACCATGAAGCCATCCGTTACACG
TGGGTCTGAACTTGTAGACTCGGTTCAACTATCAAATAAATCTATATCAGAAAGTAAAAA
AAAAAAAAAAAA

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

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

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               127-232, - strand, RNAz p=0.999924

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


               
               127-232, - strand, RNAz p=0.999924

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               167-292, + strand, RNAmicro p=1

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


               
               167-292, + strand, RNAmicro p=1

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               127-228, 457273 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI679967.1|), 
blast E-value=7e-21, identity=88.24% 
               

               
               127-228, 968573 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK846109.1|), 
blast E-value=7e-21, identity=88.24% 
               

               
               127-228, BU02002X1H12 Normalized and Subtracted bovine endometrium tissues 
(gb|CV798979.1|), blast E-value=7e-21, identity=88.24% 
               

               
               127-228, LB01630.CR_N23 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT816679.1|), 
blast E-value=7e-21, identity=88.24% 
               

               
               127-228, LB02914.CR_A16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV918782.1|), 
blast E-value=7e-21, identity=88.24% 
               

               
               127-228, 000210BCEB002860HT BCEB Bos taurus cDNA, mRNA sequence 
(gb|DY158880.1|), blast E-value=7e-21, identity=88.24%

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


               
               127-228, 457273 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI679967.1|), 
blast E-value=7e-21, identity=88.24% 
               

               
               127-228, 968573 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK846109.1|), 
blast E-value=7e-21, identity=88.24% 
               

               
               127-228, BU02002X1H12 Normalized and Subtracted bovine endometrium tissues 
(gb|CV798979.1|), blast E-value=7e-21, identity=88.24% 
               

               
               127-228, LB01630.CR_N23 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT816679.1|), 
blast E-value=7e-21, identity=88.24% 
               

               
               127-228, LB02914.CR_A16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV918782.1|), 
blast E-value=7e-21, identity=88.24% 
               

               
               127-228, 000210BCEB002860HT BCEB Bos taurus cDNA, mRNA sequence 
(gb|DY158880.1|), blast E-value=7e-21, identity=88.24%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-829, gnl|bosTau2|chr11 (78742153-78742975)
               

               
               1-829, gnl|Hg17|chr9 (128759027-128759870)
               

               
               1-829, gnl|Mm7|chr2 (30270226-30271096)

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


               
               1-829, gnl|bosTau2|chr11 (78742153-78742975)
               

               
               1-829, gnl|Hg17|chr9 (128759027-128759870)
               

               
               1-829, gnl|Mm7|chr2 (30270226-30271096)

Expressed library(ies): 7 entry(ies)

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Expressed library(ies): 7 entry(ies)

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               hyp (0.42851)
               

               
               cly (0.241284)
               

               
               fcc (0.197785)
               

               
               fhi (0.169578)
               

               
               pla (0.133672)
               

               
               bla (0.124347)
               

               
               nbm (0.0993246)

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


               
               hyp (0.42851)
               

               
               cly (0.241284)
               

               
               fcc (0.197785)
               

               
               fhi (0.169578)
               

               
               pla (0.133672)
               

               
               bla (0.124347)
               

               
               nbm (0.0993246)

	127-228, 457273 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI679967.1\|), blast E-value=7e-21, identity=88.24%
	127-228, 968573 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK846109.1\|), blast E-value=7e-21, identity=88.24%
	127-228, BU02002X1H12 Normalized and Subtracted bovine endometrium tissues (gb\|CV798979.1\|), blast E-value=7e-21, identity=88.24%
	127-228, LB01630.CR_N23 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT816679.1\|), blast E-value=7e-21, identity=88.24%
	127-228, LB02914.CR_A16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV918782.1\|), blast E-value=7e-21, identity=88.24%
	127-228, 000210BCEB002860HT BCEB Bos taurus cDNA, mRNA sequence (gb\|DY158880.1\|), blast E-value=7e-21, identity=88.24%

	1-829, gnl\|bosTau2\|chr11 (78742153-78742975)
	1-829, gnl\|Hg17\|chr9 (128759027-128759870)
	1-829, gnl\|Mm7\|chr2 (30270226-30271096)

	hyp (0.42851)
	cly (0.241284)
	fcc (0.197785)
	fhi (0.169578)
	pla (0.133672)
	bla (0.124347)
	nbm (0.0993246)