Non-Coding RNA Search

Ss1.1-Pig4-TMW8042N04.3

Sequence:


               
               CTGCTGTCTAGAACTTCAGAATACATTTCTCCCTGTCAAGTTATAAATGATGGTTTAGTT
CTGAGGCAGCTACAGATGCCTATTTATTCCCTAATGTACCTGAACACTAGTACCATAGAA
CTGAGCCCCCATCTGTATCACTGCATGGGGAGCATGCATTCTGAGGTCTAACGTAGGGGT
GCCGGGGAAACATACTCCCCAACCCTGTAGAGGGAATGGGGACCCTTGGGTACCAGGAGT
TCTTTTGTAGCCTCTGCTGGGGGCAGGGGAGTCAGTAGCACCCGTTTGTACATATAGGTC
ATTCTTATGTCACATGTTTTAAATTGGGGACTGTGTGTGCTTGTGTGTGTGTTCTACCTT
TCTACCATATGTGATCAGTTTAATGGCAACTTTATTTATTTAAAAAAGAAACACAAATAG
TTACTGTTAAACTGACTAAAGCTGTTTATTTTTACTTTTAGAATTGGTCATGTGAAGAAG
TAGAAAACAAATCATGCAATAGACTGTGGGCCTAGTTAATCAATGGCTAAAGTTGAAAAG
GGGTTGGTTTCCTTTTATATATATATATATATATATATATATGTATGTATGTATATACAT
ATATATGTATATGTGTGTGTATATATATATATATATATATACACATATATATGTACACAG
ACACACACAATGTGCTTAACCACTGCCTTTTAAAACTTTAAATTAAATAAAACATTGGGG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTGCTGTCTAGAACTTCAGAATACATTTCTCCCTGTCAAGTTATAAATGATGGTTTAGTT
CTGAGGCAGCTACAGATGCCTATTTATTCCCTAATGTACCTGAACACTAGTACCATAGAA
CTGAGCCCCCATCTGTATCACTGCATGGGGAGCATGCATTCTGAGGTCTAACGTAGGGGT
GCCGGGGAAACATACTCCCCAACCCTGTAGAGGGAATGGGGACCCTTGGGTACCAGGAGT
TCTTTTGTAGCCTCTGCTGGGGGCAGGGGAGTCAGTAGCACCCGTTTGTACATATAGGTC
ATTCTTATGTCACATGTTTTAAATTGGGGACTGTGTGTGCTTGTGTGTGTGTTCTACCTT
TCTACCATATGTGATCAGTTTAATGGCAACTTTATTTATTTAAAAAAGAAACACAAATAG
TTACTGTTAAACTGACTAAAGCTGTTTATTTTTACTTTTAGAATTGGTCATGTGAAGAAG
TAGAAAACAAATCATGCAATAGACTGTGGGCCTAGTTAATCAATGGCTAAAGTTGAAAAG
GGGTTGGTTTCCTTTTATATATATATATATATATATATATATGTATGTATGTATATACAT
ATATATGTATATGTGTGTGTATATATATATATATATATATACACATATATATGTACACAG
ACACACACAATGTGCTTAACCACTGCCTTTTAAAACTTTAAATTAAATAAAACATTGGGG

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

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

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               44-277, - strand, RNAz p=0.724498
               

               
               354-468, - strand, RNAz p=0.92889
               

               
               492-605, + strand, RNAz p=0.999914

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


               
               44-277, - strand, RNAz p=0.724498
               

               
               354-468, - strand, RNAz p=0.92889
               

               
               492-605, + strand, RNAz p=0.999914

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               372-515, - strand, RNAmicro p=0.977671
               

               
               384-453, + strand, RNAmicro p=0.916242

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


               
               372-515, - strand, RNAmicro p=0.977671
               

               
               384-453, + strand, RNAmicro p=0.916242

Similar Transcript(s): 12 entry(ies)

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Similar Transcript(s): 12 entry(ies)

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               354-447, CR552750 Normalized and Subtracted bovine embryonic and 
(emb|CR552750.2|), blast E-value=2e-37, identity=96.81% 
               

               
               354-447, 606656 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB430745.1|), 
blast E-value=2e-37, identity=96.81% 
               

               
               354-447, 720957 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB461032.1|), 
blast E-value=2e-37, identity=96.81% 
               

               
               357-468, CT020013B10E09 Equine Articular Cartilage cDNA Library Equus 
(gb|CX596217.1|), blast E-value=9.99967e-42, identity=94.78% 
               

               
               354-447, UMC-bcl_0A01-037-g01 Day 8 Corpus luteum bcl Bos taurus cDNA 3', 
(gb|DN818369.1|), blast E-value=2e-37, identity=96.81% 
               

               
               354-447, LB0257.CR_D09 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|DV876958.1|), 
blast E-value=2e-37, identity=96.81% 
               

               
               492-553, CR552750 Normalized and Subtracted bovine embryonic and 
(emb|CR552750.2|), blast E-value=8e-21, identity=96.77% 
               

               
               492-553, 606656 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB430745.1|), 
blast E-value=8e-21, identity=96.77% 
               

               
               492-553, 720957 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB461032.1|), 
blast E-value=8e-21, identity=96.77% 
               

               
               492-553, UMC-bcl_0A01-037-g01 Day 8 Corpus luteum bcl Bos taurus cDNA 3', 
(gb|DN818369.1|), blast E-value=8e-21, identity=96.77% 
               

               
               492-553, LB0257.CR_D09 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|DV876958.1|), 
blast E-value=8e-21, identity=96.77% 
               

               
               492-553, LB03019.CR_F07 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV930325.1|), 
blast E-value=8e-21, identity=96.77%

Similar Transcript(s): 12 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


               
               354-447, CR552750 Normalized and Subtracted bovine embryonic and 
(emb|CR552750.2|), blast E-value=2e-37, identity=96.81% 
               

               
               354-447, 606656 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB430745.1|), 
blast E-value=2e-37, identity=96.81% 
               

               
               354-447, 720957 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB461032.1|), 
blast E-value=2e-37, identity=96.81% 
               

               
               357-468, CT020013B10E09 Equine Articular Cartilage cDNA Library Equus 
(gb|CX596217.1|), blast E-value=9.99967e-42, identity=94.78% 
               

               
               354-447, UMC-bcl_0A01-037-g01 Day 8 Corpus luteum bcl Bos taurus cDNA 3', 
(gb|DN818369.1|), blast E-value=2e-37, identity=96.81% 
               

               
               354-447, LB0257.CR_D09 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|DV876958.1|), 
blast E-value=2e-37, identity=96.81% 
               

               
               492-553, CR552750 Normalized and Subtracted bovine embryonic and 
(emb|CR552750.2|), blast E-value=8e-21, identity=96.77% 
               

               
               492-553, 606656 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB430745.1|), 
blast E-value=8e-21, identity=96.77% 
               

               
               492-553, 720957 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB461032.1|), 
blast E-value=8e-21, identity=96.77% 
               

               
               492-553, UMC-bcl_0A01-037-g01 Day 8 Corpus luteum bcl Bos taurus cDNA 3', 
(gb|DN818369.1|), blast E-value=8e-21, identity=96.77% 
               

               
               492-553, LB0257.CR_D09 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|DV876958.1|), 
blast E-value=8e-21, identity=96.77% 
               

               
               492-553, LB03019.CR_F07 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV930325.1|), 
blast E-value=8e-21, identity=96.77%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of AK128102, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of AK128102, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               7-605, gnl|bosTau2|chr5 (40941238-40940641)
               

               
               7-605, gnl|Hg17|chr12 (105782856-105783469)
               

               
               7-605, gnl|Mm7|chr10 (84557148-84557743)

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


               
               7-605, gnl|bosTau2|chr5 (40941238-40940641)
               

               
               7-605, gnl|Hg17|chr12 (105782856-105783469)
               

               
               7-605, gnl|Mm7|chr10 (84557148-84557743)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               fcc (0.197785)
               

               
               nep (0.183925)
               

               
               fhi (0.169578)

Expressed library(ies): 3 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


               
               fcc (0.197785)
               

               
               nep (0.183925)
               

               
               fhi (0.169578)

	44-277, - strand, RNAz p=0.724498
	354-468, - strand, RNAz p=0.92889
	492-605, + strand, RNAz p=0.999914

	372-515, - strand, RNAmicro p=0.977671
	384-453, + strand, RNAmicro p=0.916242

	354-447, CR552750 Normalized and Subtracted bovine embryonic and (emb\|CR552750.2\|), blast E-value=2e-37, identity=96.81%
	354-447, 606656 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB430745.1\|), blast E-value=2e-37, identity=96.81%
	354-447, 720957 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB461032.1\|), blast E-value=2e-37, identity=96.81%
	357-468, CT020013B10E09 Equine Articular Cartilage cDNA Library Equus (gb\|CX596217.1\|), blast E-value=9.99967e-42, identity=94.78%
	354-447, UMC-bcl_0A01-037-g01 Day 8 Corpus luteum bcl Bos taurus cDNA 3', (gb\|DN818369.1\|), blast E-value=2e-37, identity=96.81%
	354-447, LB0257.CR_D09 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb\|DV876958.1\|), blast E-value=2e-37, identity=96.81%
	492-553, CR552750 Normalized and Subtracted bovine embryonic and (emb\|CR552750.2\|), blast E-value=8e-21, identity=96.77%
	492-553, 606656 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB430745.1\|), blast E-value=8e-21, identity=96.77%
	492-553, 720957 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB461032.1\|), blast E-value=8e-21, identity=96.77%
	492-553, UMC-bcl_0A01-037-g01 Day 8 Corpus luteum bcl Bos taurus cDNA 3', (gb\|DN818369.1\|), blast E-value=8e-21, identity=96.77%
	492-553, LB0257.CR_D09 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb\|DV876958.1\|), blast E-value=8e-21, identity=96.77%
	492-553, LB03019.CR_F07 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV930325.1\|), blast E-value=8e-21, identity=96.77%

	7-605, gnl\|bosTau2\|chr5 (40941238-40940641)
	7-605, gnl\|Hg17\|chr12 (105782856-105783469)
	7-605, gnl\|Mm7\|chr10 (84557148-84557743)