Non-Coding RNA Search

Ss1.1-Pig2-43E05.5

Sequence:


               
               GGAAGCTGTGCAGGAATACAAGTTGAAGTTGGAGAAGGACATGGAATACCTGCGAGAAGA
GATGATGAAAACCGGGAACTTGCAGGCCAAGGAGGAACAGACCTTGGCAGAGTGGCAGGA
GAAGGTGAAGGAGAGAAGGGAGCACATTATGGTTGAGTTTGAGAAGATGGACCTCTTCCT
GATGGAGGAGAAGCAGCGCCTCCTCCATGCCCTGAAGAAGGAGGAGGAAGAGATGGTAGC
AAAGCTGCAGAAGAGCATAGCCTTGCTGGAGCAGCAGAGTCACTCCTTGGAGATGCTGTT
ACTGCAGCTTGAGGACAAGAATGAGCGCACACCACTTCAGAAGCTGCAGGATATGAAGGA
CCTCCTCAGCAGGAAGAACAACCTGAGTGTGCAGTACCCAGAGGCCACAACCACCAAGCT
GAAGACAGTCTGTAGGGTCCCAGGGCAGATAGAGGTGCTCAAGAATTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGAAGCTGTGCAGGAATACAAGTTGAAGTTGGAGAAGGACATGGAATACCTGCGAGAAGA
GATGATGAAAACCGGGAACTTGCAGGCCAAGGAGGAACAGACCTTGGCAGAGTGGCAGGA
GAAGGTGAAGGAGAGAAGGGAGCACATTATGGTTGAGTTTGAGAAGATGGACCTCTTCCT
GATGGAGGAGAAGCAGCGCCTCCTCCATGCCCTGAAGAAGGAGGAGGAAGAGATGGTAGC
AAAGCTGCAGAAGAGCATAGCCTTGCTGGAGCAGCAGAGTCACTCCTTGGAGATGCTGTT
ACTGCAGCTTGAGGACAAGAATGAGCGCACACCACTTCAGAAGCTGCAGGATATGAAGGA
CCTCCTCAGCAGGAAGAACAACCTGAGTGTGCAGTACCCAGAGGCCACAACCACCAAGCT
GAAGACAGTCTGTAGGGTCCCAGGGCAGATAGAGGTGCTCAAGAATTT

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

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

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               74-350, + strand, RNAz p=0.999965

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


               
               74-350, + strand, RNAz p=0.999965

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               248-312, - strand, RNAmicro p=0.91895

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


               
               248-312, - strand, RNAmicro p=0.91895

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               81-247, LB00474.CR_K06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT846732.1|), 
blast E-value=0, identity=90.42% 
               

               
               116-207, LB02811.CR_J21 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV908595.1|), 
blast E-value=2e-26, identity=92.39% 
               

               
               116-207, LB02814.CR_P10 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV909608.1|), 
blast E-value=2e-26, identity=92.39% 
               

               
               116-207, LB01826.CR_I01 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb|EE224808.1|), 
blast E-value=2e-26, identity=92.39% 
               

               
               116-207, LB02229.CR_G21 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE243196.1|), 
blast E-value=2e-26, identity=92.39% 
               

               
               116-207, LB0228.CR_J13 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE244616.1|), 
blast E-value=2e-26, identity=92.39%

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


               
               81-247, LB00474.CR_K06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT846732.1|), 
blast E-value=0, identity=90.42% 
               

               
               116-207, LB02811.CR_J21 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV908595.1|), 
blast E-value=2e-26, identity=92.39% 
               

               
               116-207, LB02814.CR_P10 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV909608.1|), 
blast E-value=2e-26, identity=92.39% 
               

               
               116-207, LB01826.CR_I01 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb|EE224808.1|), 
blast E-value=2e-26, identity=92.39% 
               

               
               116-207, LB02229.CR_G21 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE243196.1|), 
blast E-value=2e-26, identity=92.39% 
               

               
               116-207, LB0228.CR_J13 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE244616.1|), 
blast E-value=2e-26, identity=92.39%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               74-350, gnl|bosTau2|chr7 (928799-928523)
               

               
               74-350, gnl|Hg17|chr1 (224905606-224905381)
               

               
               74-350, gnl|Mm7|chr11 (59050038-59050263)
               


               
               363-468, gnl|bosTau2|chr7 (927067-926962)
               

               
               363-468, gnl|canFam2|chr14 (3582410-3582157)
               

               
               363-468, gnl|dasNov1|scaffold_69546 (4771-5050)
               

               
               363-468, gnl|echTel1|scaffold_221626 (3552-3290)
               

               
               363-468, gnl|hg17|chr1 (224903545-224903844)
               

               
               363-468, gnl|Hg17|chr1 (224903721-224903613)
               

               
               363-468, gnl|mm7|chr11 (59052251-59051977)
               

               
               363-468, gnl|Mm7|chr11 (59052077-59052185)
               

               
               363-468, gnl|panTro1|chr1 (208697164-208697462)
               

               
               363-468, gnl|rheMac2|chr1 (141971078-141970787)
               

               
               363-468, gnl|rn3|chr10 (45275780-45275498)

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


               
               74-350, gnl|bosTau2|chr7 (928799-928523)
               

               
               74-350, gnl|Hg17|chr1 (224905606-224905381)
               

               
               74-350, gnl|Mm7|chr11 (59050038-59050263)
               


               
               363-468, gnl|bosTau2|chr7 (927067-926962)
               

               
               363-468, gnl|canFam2|chr14 (3582410-3582157)
               

               
               363-468, gnl|dasNov1|scaffold_69546 (4771-5050)
               

               
               363-468, gnl|echTel1|scaffold_221626 (3552-3290)
               

               
               363-468, gnl|hg17|chr1 (224903545-224903844)
               

               
               363-468, gnl|Hg17|chr1 (224903721-224903613)
               

               
               363-468, gnl|mm7|chr11 (59052251-59051977)
               

               
               363-468, gnl|Mm7|chr11 (59052077-59052185)
               

               
               363-468, gnl|panTro1|chr1 (208697164-208697462)
               

               
               363-468, gnl|rheMac2|chr1 (141971078-141970787)
               

               
               363-468, gnl|rn3|chr10 (45275780-45275498)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               nmm (0.132802)

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


               
               nmm (0.132802)

	81-247, LB00474.CR_K06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb\|DT846732.1\|), blast E-value=0, identity=90.42%
	116-207, LB02811.CR_J21 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb\|DV908595.1\|), blast E-value=2e-26, identity=92.39%
	116-207, LB02814.CR_P10 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb\|DV909608.1\|), blast E-value=2e-26, identity=92.39%
	116-207, LB01826.CR_I01 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb\|EE224808.1\|), blast E-value=2e-26, identity=92.39%
	116-207, LB02229.CR_G21 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb\|EE243196.1\|), blast E-value=2e-26, identity=92.39%
	116-207, LB0228.CR_J13 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb\|EE244616.1\|), blast E-value=2e-26, identity=92.39%

	74-350, gnl\|bosTau2\|chr7 (928799-928523)
	74-350, gnl\|Hg17\|chr1 (224905606-224905381)
	74-350, gnl\|Mm7\|chr11 (59050038-59050263)

	363-468, gnl\|bosTau2\|chr7 (927067-926962)
	363-468, gnl\|canFam2\|chr14 (3582410-3582157)
	363-468, gnl\|dasNov1\|scaffold_69546 (4771-5050)
	363-468, gnl\|echTel1\|scaffold_221626 (3552-3290)
	363-468, gnl\|hg17\|chr1 (224903545-224903844)
	363-468, gnl\|Hg17\|chr1 (224903721-224903613)
	363-468, gnl\|mm7\|chr11 (59052251-59051977)
	363-468, gnl\|Mm7\|chr11 (59052077-59052185)
	363-468, gnl\|panTro1\|chr1 (208697164-208697462)
	363-468, gnl\|rheMac2\|chr1 (141971078-141970787)
	363-468, gnl\|rn3\|chr10 (45275780-45275498)