Non-Coding RNA Search

Ss1.1-Pig2-57L23.5

Sequence:


               
               GCGGACGCGTGGAGCTGCGAGCTGAACTGGCAGTGGGGCAGGAGTGGTCTCTCCTACCCT
AGAGACCAGAGGGTCCCCGCCCAGCTTGCTCTCACTACAGTTTTTCAGACCTCCCTCCCC
CAATGGGGAGGGCCCATCCATCCATCGTAAGCCCCTCTTAGATGGGCTTGCACCTCAGTT
GATGCTGCTAGATTCCCTGGGAGCCAGCAGGGAGCTGGCTGGACTCAATGCTGCCCAGAA
CTGAGAAGGCTGCAGAGTGCGGCAGCCAGCCTGGCCATCCTGAGGCATGACGTTCCTCTC
TGGCCACACTCCTAGGGACACATCCAGAGACTGTCGCTGTCAGTGTACAGAGTTCTGTGT
TCCAGCCAATGTGATCAGAGTGCCCCAGGACTGGGGGAGTGGCCTGGATGCCCTTCCCAC
CCCTGCCCAGGCTATACGCTCCCTATTCTGCTGAACCATGACCCCAACCCTCTCCTCCGG
TCAGTCTCCCCCACCTTATTTATTGACACCGAGGGGGGAAACCCACGGGAAAATTTTGGG
GATGTTTTGGTCTTTTCTTCCTTTTGTAATAAAAATTATTTAAGTTGT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCGGACGCGTGGAGCTGCGAGCTGAACTGGCAGTGGGGCAGGAGTGGTCTCTCCTACCCT
AGAGACCAGAGGGTCCCCGCCCAGCTTGCTCTCACTACAGTTTTTCAGACCTCCCTCCCC
CAATGGGGAGGGCCCATCCATCCATCGTAAGCCCCTCTTAGATGGGCTTGCACCTCAGTT
GATGCTGCTAGATTCCCTGGGAGCCAGCAGGGAGCTGGCTGGACTCAATGCTGCCCAGAA
CTGAGAAGGCTGCAGAGTGCGGCAGCCAGCCTGGCCATCCTGAGGCATGACGTTCCTCTC
TGGCCACACTCCTAGGGACACATCCAGAGACTGTCGCTGTCAGTGTACAGAGTTCTGTGT
TCCAGCCAATGTGATCAGAGTGCCCCAGGACTGGGGGAGTGGCCTGGATGCCCTTCCCAC
CCCTGCCCAGGCTATACGCTCCCTATTCTGCTGAACCATGACCCCAACCCTCTCCTCCGG
TCAGTCTCCCCCACCTTATTTATTGACACCGAGGGGGGAAACCCACGGGAAAATTTTGGG
GATGTTTTGGTCTTTTCTTCCTTTTGTAATAAAAATTATTTAAGTTGT

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               74-285, - strand, RNAz p=0.995376
               

               
               76-229, - strand, RNAz p=0.949814
               

               
               380-530, - strand, RNAz p=0.821534
               

               
               445-562, - strand, RNAz p=0.939845

Predicted RNA structure(s): 4 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


               
               74-285, - strand, RNAz p=0.995376
               

               
               76-229, - strand, RNAz p=0.949814
               

               
               380-530, - strand, RNAz p=0.821534
               

               
               445-562, - strand, RNAz p=0.939845

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               418-505, + strand, RNAmicro p=0.946275

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


               
               418-505, + strand, RNAmicro p=0.946275

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               76-229, DB815038 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB815038.1|), blast E-value=0, identity=98.7% 
               

               
               91-229, 697762 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB445980.1|), 
blast E-value=4e-39, identity=90.71% 
               

               
               91-229, 716015 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB457898.1|), 
blast E-value=5.99994e-41, identity=91.43% 
               

               
               91-229, 732566 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB466856.1|), 
blast E-value=4e-39, identity=90.71% 
               

               
               91-229, LB0171.CR_H15 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DT807376.1|), 
blast E-value=1e-38, identity=90.71% 
               

               
               91-229, LB01726.CR_J07 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV818621.1|), 
blast E-value=1e-38, identity=90.71%

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


               
               76-229, DB815038 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB815038.1|), blast E-value=0, identity=98.7% 
               

               
               91-229, 697762 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB445980.1|), 
blast E-value=4e-39, identity=90.71% 
               

               
               91-229, 716015 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB457898.1|), 
blast E-value=5.99994e-41, identity=91.43% 
               

               
               91-229, 732566 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB466856.1|), 
blast E-value=4e-39, identity=90.71% 
               

               
               91-229, LB0171.CR_H15 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DT807376.1|), 
blast E-value=1e-38, identity=90.71% 
               

               
               91-229, LB01726.CR_J07 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV818621.1|), 
blast E-value=1e-38, identity=90.71%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               13-588, gnl|bosTau2|chr2 (64994628-64994054)
               

               
               13-588, gnl|canFam2|chr37 (28616421-28616980)
               

               
               13-588, gnl|dasNov1|scaffold_117900 (2929-2368)
               

               
               13-588, gnl|echTel1|scaffold_268221 (10952-10395)
               

               
               13-588, gnl|hg17|chr2 (219744630-219745173)
               

               
               13-588, gnl|Hg17|chr2 (219745239-219744655)
               

               
               13-588, gnl|loxAfr1|scaffold_20188 (6489-7045)
               

               
               13-588, gnl|mm7|chr1 (75184975-75185532)
               

               
               13-588, gnl|Mm7|chr1 (75185588-75185000)
               

               
               13-588, gnl|monDom2|scaffold_39 (1550560-1549870)
               

               
               13-588, gnl|oryCun1|scaffold_207890 (66643-67231)
               

               
               13-588, gnl|panTro1|chr13 (109908145-109908688)
               

               
               13-588, gnl|rheMac2|chr12 (82907785-82908342)
               

               
               13-588, gnl|rn3|chr9 (74434078-74434659)

Aligned organism(s): 14 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


               
               13-588, gnl|bosTau2|chr2 (64994628-64994054)
               

               
               13-588, gnl|canFam2|chr37 (28616421-28616980)
               

               
               13-588, gnl|dasNov1|scaffold_117900 (2929-2368)
               

               
               13-588, gnl|echTel1|scaffold_268221 (10952-10395)
               

               
               13-588, gnl|hg17|chr2 (219744630-219745173)
               

               
               13-588, gnl|Hg17|chr2 (219745239-219744655)
               

               
               13-588, gnl|loxAfr1|scaffold_20188 (6489-7045)
               

               
               13-588, gnl|mm7|chr1 (75184975-75185532)
               

               
               13-588, gnl|Mm7|chr1 (75185588-75185000)
               

               
               13-588, gnl|monDom2|scaffold_39 (1550560-1549870)
               

               
               13-588, gnl|oryCun1|scaffold_207890 (66643-67231)
               

               
               13-588, gnl|panTro1|chr13 (109908145-109908688)
               

               
               13-588, gnl|rheMac2|chr12 (82907785-82908342)
               

               
               13-588, gnl|rn3|chr9 (74434078-74434659)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               nje (0.16592)

Expressed library(ies): 1 entry(ies)

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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


               
               nje (0.16592)

	74-285, - strand, RNAz p=0.995376
	76-229, - strand, RNAz p=0.949814
	380-530, - strand, RNAz p=0.821534
	445-562, - strand, RNAz p=0.939845

	76-229, DB815038 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB815038.1\|), blast E-value=0, identity=98.7%
	91-229, 697762 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB445980.1\|), blast E-value=4e-39, identity=90.71%
	91-229, 716015 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB457898.1\|), blast E-value=5.99994e-41, identity=91.43%
	91-229, 732566 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB466856.1\|), blast E-value=4e-39, identity=90.71%
	91-229, LB0171.CR_H15 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|DT807376.1\|), blast E-value=1e-38, identity=90.71%
	91-229, LB01726.CR_J07 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|DV818621.1\|), blast E-value=1e-38, identity=90.71%

	13-588, gnl\|bosTau2\|chr2 (64994628-64994054)
	13-588, gnl\|canFam2\|chr37 (28616421-28616980)
	13-588, gnl\|dasNov1\|scaffold_117900 (2929-2368)
	13-588, gnl\|echTel1\|scaffold_268221 (10952-10395)
	13-588, gnl\|hg17\|chr2 (219744630-219745173)
	13-588, gnl\|Hg17\|chr2 (219745239-219744655)
	13-588, gnl\|loxAfr1\|scaffold_20188 (6489-7045)
	13-588, gnl\|mm7\|chr1 (75184975-75185532)
	13-588, gnl\|Mm7\|chr1 (75185588-75185000)
	13-588, gnl\|monDom2\|scaffold_39 (1550560-1549870)
	13-588, gnl\|oryCun1\|scaffold_207890 (66643-67231)
	13-588, gnl\|panTro1\|chr13 (109908145-109908688)
	13-588, gnl\|rheMac2\|chr12 (82907785-82908342)
	13-588, gnl\|rn3\|chr9 (74434078-74434659)