Non-Coding RNA Search

Ss1.1-End1-UMC-pd3end1-001-d04.3

Sequence:


               
               GTGCGGTTCATCAGATCCACTGACTGTGCTCCATTAGCAAGAATATTCCTAGACCAGGAA
ATTGATGGGCAGGCCCTGTTGCTCCTTACCCTTCCCACCGTTCAAGAGTGCATGGACTTA
AAATTGGGCCCTGCCATCAAACTTTGCCATCACATAGAGAGGATCAAGTTTGCTTTTTAT
GAACAGTTTGCCAACTGAGAAGGACAACCAAAGTAAGCTGTATCTTTGAAGCACAAATGC
AGCAAATCCTTTGCCCTGCTATAGAAGTGGAGCTGAAATAGTCCTGGGGCTCTGGGCCTT
GCAGGTGTCGGCTTGCTCTCTTTGCACTTTCAGGGAAGGAGGATCCACACAGAGGAAGCA
AAAACTGCACAGAAGTGGCTCTAATGCCAGTGAAAGTGTGGTCATCTCTTGTTCAGCAAA
TTGCAGTTTTTAAACAATAAAAGTTGTGAAGAAAAGACTCATGTAAGAAGAATAAGCATT
TCCACTGGTATAACCTGAAGAAGAATGATCTAGGCTGCTGGGAAGCACCCTTTTGGTTTT
CCTTTTGTCCTTTCTGTTCCTTCCCATTGTAGATTGAACTTTGTTCTCTGCTTTCTCTTT
TCTTGGAAAGAGAGGACATAGCTTTAAGTCAGCACTGATTGGACTGTGCCTGAGGCACAT
CAGTGCTTCATTGTCATTGTGTTTTTAAGCTTTTTTAAATTAAAAAAAGTTCATTTTGGG
GATGATTATGTGGCTCTGGGGTTTTGAATGTACAGTCACACTTTGATCCATTTTAAAATC
TATTCTTAGGAGTTCCTTTGTTTACTACCTCTGTTAATAATTGAGCTTATAGCCATGTCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTGCGGTTCATCAGATCCACTGACTGTGCTCCATTAGCAAGAATATTCCTAGACCAGGAA
ATTGATGGGCAGGCCCTGTTGCTCCTTACCCTTCCCACCGTTCAAGAGTGCATGGACTTA
AAATTGGGCCCTGCCATCAAACTTTGCCATCACATAGAGAGGATCAAGTTTGCTTTTTAT
GAACAGTTTGCCAACTGAGAAGGACAACCAAAGTAAGCTGTATCTTTGAAGCACAAATGC
AGCAAATCCTTTGCCCTGCTATAGAAGTGGAGCTGAAATAGTCCTGGGGCTCTGGGCCTT
GCAGGTGTCGGCTTGCTCTCTTTGCACTTTCAGGGAAGGAGGATCCACACAGAGGAAGCA
AAAACTGCACAGAAGTGGCTCTAATGCCAGTGAAAGTGTGGTCATCTCTTGTTCAGCAAA
TTGCAGTTTTTAAACAATAAAAGTTGTGAAGAAAAGACTCATGTAAGAAGAATAAGCATT
TCCACTGGTATAACCTGAAGAAGAATGATCTAGGCTGCTGGGAAGCACCCTTTTGGTTTT
CCTTTTGTCCTTTCTGTTCCTTCCCATTGTAGATTGAACTTTGTTCTCTGCTTTCTCTTT
TCTTGGAAAGAGAGGACATAGCTTTAAGTCAGCACTGATTGGACTGTGCCTGAGGCACAT
CAGTGCTTCATTGTCATTGTGTTTTTAAGCTTTTTTAAATTAAAAAAAGTTCATTTTGGG
GATGATTATGTGGCTCTGGGGTTTTGAATGTACAGTCACACTTTGATCCATTTTAAAATC
TATTCTTAGGAGTTCCTTTGTTTACTACCTCTGTTAATAATTGAGCTTATAGCCATGTCC

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               482-725, + strand, RNAz p=0.99318
               

               
               487-681, + strand, RNAz p=0.988765

Predicted RNA structure(s): 2 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


               
               482-725, + strand, RNAz p=0.99318
               

               
               487-681, + strand, RNAz p=0.988765

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               564-706, + strand, RNAmicro p=0.999016
               

               
               566-707, + strand, RNAmicro p=0.959517

Predicted microRNA(s): 2 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


               
               564-706, + strand, RNAmicro p=0.999016
               

               
               566-707, + strand, RNAmicro p=0.959517

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               500-701, 604460 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB428715.1|), 
blast E-value=0, identity=91.18% 
               

               
               500-725, CF-02-R-A08 Bos taurus CF-24-HW cDNA library Bos taurus cDNA clone 
(gb|CF929897.1|), blast E-value=0, identity=89.04% 
               

               
               500-725, 4073877 BARC 10BOV Bos taurus cDNA clone 10BOV25_O22 3', mRNA 
(gb|CK948732.1|), blast E-value=0, identity=89.04% 
               

               
               500-701, DG11-110i17 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO680098.1|), blast E-value=0, identity=92.23% 
               

               
               482-701, UMC-pd3end1-001-d04 Endometrium gilt D3 of estrous cycle pd3end Sus 
(gb|CO987978.1|), blast E-value=0, identity=100% 
               

               
               500-725, LB03088.CR_M10 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE388080.1|), 
blast E-value=0, identity=89.04%

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


               
               500-701, 604460 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB428715.1|), 
blast E-value=0, identity=91.18% 
               

               
               500-725, CF-02-R-A08 Bos taurus CF-24-HW cDNA library Bos taurus cDNA clone 
(gb|CF929897.1|), blast E-value=0, identity=89.04% 
               

               
               500-725, 4073877 BARC 10BOV Bos taurus cDNA clone 10BOV25_O22 3', mRNA 
(gb|CK948732.1|), blast E-value=0, identity=89.04% 
               

               
               500-701, DG11-110i17 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO680098.1|), blast E-value=0, identity=92.23% 
               

               
               482-701, UMC-pd3end1-001-d04 Endometrium gilt D3 of estrous cycle pd3end Sus 
(gb|CO987978.1|), blast E-value=0, identity=100% 
               

               
               500-725, LB03088.CR_M10 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE388080.1|), 
blast E-value=0, identity=89.04%

Homologous human UTR: 2 entry(ies)

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Homologous human UTR: 2 entry(ies)

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               5' of NM_001005159, +
               

               
               5' of NM_001005159, +

Homologous human UTR: 2 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_001005159, +
               

               
               5' of NM_001005159, +

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               55-839, gnl|bosTau2|chr22 (37173036-37172251)
               

               
               55-839, gnl|Hg17|chr3 (52914335-52913554)
               

               
               55-839, gnl|Mm7|chr14 (28247310-28248065)
               


               
               326-725, gnl|bosTau2|chr10 (27389287-27389685)
               

               
               326-725, gnl|Hg17|chr3 (52914064-52913667)
               

               
               326-725, gnl|Mm7|chr14 (28247580-28247952)

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


               
               55-839, gnl|bosTau2|chr22 (37173036-37172251)
               

               
               55-839, gnl|Hg17|chr3 (52914335-52913554)
               

               
               55-839, gnl|Mm7|chr14 (28247310-28248065)
               


               
               326-725, gnl|bosTau2|chr10 (27389287-27389685)
               

               
               326-725, gnl|Hg17|chr3 (52914064-52913667)
               

               
               326-725, gnl|Mm7|chr14 (28247580-28247952)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               cte (0.29274)
               

               
               bfe (0.149858)

Expressed library(ies): 2 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


               
               cte (0.29274)
               

               
               bfe (0.149858)

	482-725, + strand, RNAz p=0.99318
	487-681, + strand, RNAz p=0.988765

	564-706, + strand, RNAmicro p=0.999016
	566-707, + strand, RNAmicro p=0.959517

	500-701, 604460 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB428715.1\|), blast E-value=0, identity=91.18%
	500-725, CF-02-R-A08 Bos taurus CF-24-HW cDNA library Bos taurus cDNA clone (gb\|CF929897.1\|), blast E-value=0, identity=89.04%
	500-725, 4073877 BARC 10BOV Bos taurus cDNA clone 10BOV25_O22 3', mRNA (gb\|CK948732.1\|), blast E-value=0, identity=89.04%
	500-701, DG11-110i17 DG11-kidney Canis familiaris cDNA 3', mRNA sequence (gb\|CO680098.1\|), blast E-value=0, identity=92.23%
	482-701, UMC-pd3end1-001-d04 Endometrium gilt D3 of estrous cycle pd3end Sus (gb\|CO987978.1\|), blast E-value=0, identity=100%
	500-725, LB03088.CR_M10 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE388080.1\|), blast E-value=0, identity=89.04%

	55-839, gnl\|bosTau2\|chr22 (37173036-37172251)
	55-839, gnl\|Hg17\|chr3 (52914335-52913554)
	55-839, gnl\|Mm7\|chr14 (28247310-28248065)

	326-725, gnl\|bosTau2\|chr10 (27389287-27389685)
	326-725, gnl\|Hg17\|chr3 (52914064-52913667)
	326-725, gnl\|Mm7\|chr14 (28247580-28247952)