Non-Coding RNA Search

Ss1.1-Pig4-TMW8017E22.3

Sequence:


               
               CAACAATTGTGCCCCAATTCAAACTTTTTTCCTGGGTTGTTTTAGTAAATTTATAAAGTA
TGCCAAGCCTTATGGTTAACACTTTCTTCTAAAATCAAGTATTAAAGCCACATTTTAAAA
GACCACATGAAATGCTGATTCTAATTGTGTGTAGGTCTTGAGGATTAAGCACACAAATTT
CACAAAACTCTGTGAGTAACAAACTCAGCCTTCTGTAAATATACATGCAAGTTTGGAAAC
AGTAATACTGTACCTATAAATATATGCTGTCTGTTTTGTGTACAGTATGTAAAAATTCCT
TTTCTGCCACACTAAAAATGCAAGCCATTTATGGGAATCCTAAAAAAAGTATTGTACTAA
AACTTTGCTAATGATCTTTATTAGAGGATCATCCAACTTTTCACTTACATTGGGTTTTTC
TTTTCAATTCACTCTTATGGTAGTCTGCTTATTTCCAGCTGTTTGTTATTTTATTGAGTC
CTGAATTTAAAAAAAAATATTTTGATTCATTTTGTAAATACGAGCTGTAAAAAAAAGAGA
GATTTAATGTTGTCTTTTAAATACTCCGATTTTCATTCTAATATGAATGTTGTTATATTG
TACTTAGAAACTGTACCTTTAATATTACATTACCTTTATTAAAAGTGCATTGAACACATC
AATTTTAGATGTGCTTTATGTACTGTTATCCTATAATAAAATTTCAGCTTCTAATGGAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAACAATTGTGCCCCAATTCAAACTTTTTTCCTGGGTTGTTTTAGTAAATTTATAAAGTA
TGCCAAGCCTTATGGTTAACACTTTCTTCTAAAATCAAGTATTAAAGCCACATTTTAAAA
GACCACATGAAATGCTGATTCTAATTGTGTGTAGGTCTTGAGGATTAAGCACACAAATTT
CACAAAACTCTGTGAGTAACAAACTCAGCCTTCTGTAAATATACATGCAAGTTTGGAAAC
AGTAATACTGTACCTATAAATATATGCTGTCTGTTTTGTGTACAGTATGTAAAAATTCCT
TTTCTGCCACACTAAAAATGCAAGCCATTTATGGGAATCCTAAAAAAAGTATTGTACTAA
AACTTTGCTAATGATCTTTATTAGAGGATCATCCAACTTTTCACTTACATTGGGTTTTTC
TTTTCAATTCACTCTTATGGTAGTCTGCTTATTTCCAGCTGTTTGTTATTTTATTGAGTC
CTGAATTTAAAAAAAAATATTTTGATTCATTTTGTAAATACGAGCTGTAAAAAAAAGAGA
GATTTAATGTTGTCTTTTAAATACTCCGATTTTCATTCTAATATGAATGTTGTTATATTG
TACTTAGAAACTGTACCTTTAATATTACATTACCTTTATTAAAAGTGCATTGAACACATC
AATTTTAGATGTGCTTTATGTACTGTTATCCTATAATAAAATTTCAGCTTCTAATGGAAA

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

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

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               234-349, - strand, RNAz p=0.677104
               

               
               541-719, + strand, RNAz p=0.990204

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


               
               234-349, - strand, RNAz p=0.677104
               

               
               541-719, + strand, RNAz p=0.990204

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               541-719, BovGen_06122 normal cattle brain Bos taurus cDNA clone 
(gb|CO877797.1|), blast E-value=0, identity=100% 
               

               
               541-719, BovGen_11180 normal cattle brain Bos taurus cDNA clone 
(gb|CO882855.1|), blast E-value=0, identity=100% 
               

               
               541-719, oe37f09.y1 Human keratoconus cornea, unamplified, (od/oe) Homo 
(gb|CV575559.1|), blast E-value=0, identity=98.88% 
               

               
               541-719, nag26c10.x1 Rabbit eye minus lens and cornea. Unnormalized (nag) 
(gb|DN889589.1|), blast E-value=0, identity=98.88% 
               

               
               541-719, LB00477.CR_P06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT847479.1|), 
blast E-value=0, identity=100% 
               

               
               541-719, 1599832 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY462636.1|), 
blast E-value=0, identity=100%

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


               
               541-719, BovGen_06122 normal cattle brain Bos taurus cDNA clone 
(gb|CO877797.1|), blast E-value=0, identity=100% 
               

               
               541-719, BovGen_11180 normal cattle brain Bos taurus cDNA clone 
(gb|CO882855.1|), blast E-value=0, identity=100% 
               

               
               541-719, oe37f09.y1 Human keratoconus cornea, unamplified, (od/oe) Homo 
(gb|CV575559.1|), blast E-value=0, identity=98.88% 
               

               
               541-719, nag26c10.x1 Rabbit eye minus lens and cornea. Unnormalized (nag) 
(gb|DN889589.1|), blast E-value=0, identity=98.88% 
               

               
               541-719, LB00477.CR_P06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT847479.1|), 
blast E-value=0, identity=100% 
               

               
               541-719, 1599832 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY462636.1|), 
blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-719, gnl|bosTau2|chr10 (36893648-36894364)
               

               
               1-719, gnl|Hg17|chr15 (58568493-58567775)
               

               
               1-719, gnl|Mm7|chr9 (69419655-69420362)

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


               
               1-719, gnl|bosTau2|chr10 (36893648-36894364)
               

               
               1-719, gnl|Hg17|chr15 (58568493-58567775)
               

               
               1-719, gnl|Mm7|chr9 (69419655-69420362)

Expressed library(ies): 5 entry(ies)

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Expressed library(ies): 5 entry(ies)

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               amn (0.417711)
               

               
               ret (0.3862)
               

               
               fce (0.271592)
               

               
               fcc (0.197785)
               

               
               kid (0.129735)

Expressed library(ies): 5 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


               
               amn (0.417711)
               

               
               ret (0.3862)
               

               
               fce (0.271592)
               

               
               fcc (0.197785)
               

               
               kid (0.129735)

	234-349, - strand, RNAz p=0.677104
	541-719, + strand, RNAz p=0.990204

	541-719, BovGen_06122 normal cattle brain Bos taurus cDNA clone (gb\|CO877797.1\|), blast E-value=0, identity=100%
	541-719, BovGen_11180 normal cattle brain Bos taurus cDNA clone (gb\|CO882855.1\|), blast E-value=0, identity=100%
	541-719, oe37f09.y1 Human keratoconus cornea, unamplified, (od/oe) Homo (gb\|CV575559.1\|), blast E-value=0, identity=98.88%
	541-719, nag26c10.x1 Rabbit eye minus lens and cornea. Unnormalized (nag) (gb\|DN889589.1\|), blast E-value=0, identity=98.88%
	541-719, LB00477.CR_P06 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb\|DT847479.1\|), blast E-value=0, identity=100%
	541-719, 1599832 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY462636.1\|), blast E-value=0, identity=100%

	1-719, gnl\|bosTau2\|chr10 (36893648-36894364)
	1-719, gnl\|Hg17\|chr15 (58568493-58567775)
	1-719, gnl\|Mm7\|chr9 (69419655-69420362)

	amn (0.417711)
	ret (0.3862)
	fce (0.271592)
	fcc (0.197785)
	kid (0.129735)