Non-Coding RNA Search

Ss1.1-Mixc-0028,n17.5

Sequence:


               
               GAGAGAGAGAGAGAGAGAACTAGTCTCGAGTTTTTTTTTTTTTTTTTTTTTTTTGGAGGG
ACGGGTTTCTGAGAATGTCACTTTTTGTCCTTTGCATCATGTCTCTGCAAATATCTTTTT
GTCCATCGTGGTGGTGGTCTCACACTCTCTCTCTTTCTCTCATTCTCTTTCTCTCTCTCT
TTCTTTCTTTTTTTCTTCTTTTCCTGGTAGCAGGCCTCCATAGAACAAATTTAAAACACA
CAACTGGCATGGAAATGTAAGGAGAGCTTCAGTGGCACCTCACGACCCCCCTCCGAGATC
TGTCCTAAGACATAAGACAGTCTCAGAAAGCTGCACTGCCCACCCCCCGGCACAGCTTTC
ATTCAAATCAGCTTCCAAGGCCAATTTCGTCCTGAAGTCAATGCATGTATTTACTGTTTG
ACAGTAAACCCGCTCTGCCTTCTCCACGTCCAAGGCTGTGCATTCGTCTAATTAGTGTCG
TGTATGTTTTCCTTTTATTTTTTCCAATAAAAAAGCAGTGGGATGAAAATTGCTTTGATA
TATAGCAGGTAACATTGAAGCTATTCCATAGCACTTAACTGTAGTGAATACTGTGTCACC
AATTCTGAAATCAATTTAATGTTTAATGCAAATCCATTACATGGTGCTATTACAGGCTGA
CAAAATGATTTACACAAATGTGACAACTTGGGCTCAATTCACTCTGCTTTCCAACAGTGT
AAATGCATGAGAACTATGCACTAATCTATCTGAAGACAAAACTATATCAACTTTGGTATC
TACTCTCCGTTTACTTCAATCCTTGCCTTTTTGGTCATTGTTATAATGCCAGCTTTAGGA
CAGAAAGAATTATAAGAAAACCAGCATAATACCTGATATATTAAAATGTAGTGCCTGTGA
AATCTGTATTATATTGCTCTTCTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGAGAGAGAGAGAGAGAACTAGTCTCGAGTTTTTTTTTTTTTTTTTTTTTTTTGGAGGG
ACGGGTTTCTGAGAATGTCACTTTTTGTCCTTTGCATCATGTCTCTGCAAATATCTTTTT
GTCCATCGTGGTGGTGGTCTCACACTCTCTCTCTTTCTCTCATTCTCTTTCTCTCTCTCT
TTCTTTCTTTTTTTCTTCTTTTCCTGGTAGCAGGCCTCCATAGAACAAATTTAAAACACA
CAACTGGCATGGAAATGTAAGGAGAGCTTCAGTGGCACCTCACGACCCCCCTCCGAGATC
TGTCCTAAGACATAAGACAGTCTCAGAAAGCTGCACTGCCCACCCCCCGGCACAGCTTTC
ATTCAAATCAGCTTCCAAGGCCAATTTCGTCCTGAAGTCAATGCATGTATTTACTGTTTG
ACAGTAAACCCGCTCTGCCTTCTCCACGTCCAAGGCTGTGCATTCGTCTAATTAGTGTCG
TGTATGTTTTCCTTTTATTTTTTCCAATAAAAAAGCAGTGGGATGAAAATTGCTTTGATA
TATAGCAGGTAACATTGAAGCTATTCCATAGCACTTAACTGTAGTGAATACTGTGTCACC
AATTCTGAAATCAATTTAATGTTTAATGCAAATCCATTACATGGTGCTATTACAGGCTGA
CAAAATGATTTACACAAATGTGACAACTTGGGCTCAATTCACTCTGCTTTCCAACAGTGT
AAATGCATGAGAACTATGCACTAATCTATCTGAAGACAAAACTATATCAACTTTGGTATC
TACTCTCCGTTTACTTCAATCCTTGCCTTTTTGGTCATTGTTATAATGCCAGCTTTAGGA
CAGAAAGAATTATAAGAAAACCAGCATAATACCTGATATATTAAAATGTAGTGCCTGTGA
AATCTGTATTATATTGCTCTTCTG

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

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

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               276-388, - strand, RNAz p=0.999462

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


               
               276-388, - strand, RNAz p=0.999462

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               276-388, 4059026 BARC 8BOV Bos taurus cDNA clone 8BOV_6A22 5', mRNA sequence 
(gb|CK834575.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, 4076379 BARC 9BOV Bos taurus cDNA clone 9BOV10_H04 5', mRNA 
(gb|CK962068.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, 4085712 BARC 9BOV Bos taurus cDNA clone 9BOV2_M01 5', mRNA sequence 
(gb|CK969953.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, BovGen_14848 normal cattle brain Bos taurus cDNA clone 
(gb|CO886523.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, Hw_FAT_15_050513_F06 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV779482.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, LB03030.CR_F04 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE371266.1|), 
blast E-value=3e-20, identity=87.93%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               276-388, 4059026 BARC 8BOV Bos taurus cDNA clone 8BOV_6A22 5', mRNA sequence 
(gb|CK834575.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, 4076379 BARC 9BOV Bos taurus cDNA clone 9BOV10_H04 5', mRNA 
(gb|CK962068.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, 4085712 BARC 9BOV Bos taurus cDNA clone 9BOV2_M01 5', mRNA sequence 
(gb|CK969953.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, BovGen_14848 normal cattle brain Bos taurus cDNA clone 
(gb|CO886523.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, Hw_FAT_15_050513_F06 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV779482.1|), blast E-value=3e-20, identity=87.93% 
               

               
               276-388, LB03030.CR_F04 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE371266.1|), 
blast E-value=3e-20, identity=87.93%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               30-924, gnl|bosTau2|chr3 (56994875-56993984)
               

               
               30-924, gnl|Hg17|chr1 (61637496-61638408)
               

               
               30-924, gnl|Mm7|chr4 (97508491-97509465)

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


               
               30-924, gnl|bosTau2|chr3 (56994875-56993984)
               

               
               30-924, gnl|Hg17|chr1 (61637496-61638408)
               

               
               30-924, gnl|Mm7|chr4 (97508491-97509465)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               cty (0.20816)

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


               
               cty (0.20816)

	276-388, 4059026 BARC 8BOV Bos taurus cDNA clone 8BOV_6A22 5', mRNA sequence (gb\|CK834575.1\|), blast E-value=3e-20, identity=87.93%
	276-388, 4076379 BARC 9BOV Bos taurus cDNA clone 9BOV10_H04 5', mRNA (gb\|CK962068.1\|), blast E-value=3e-20, identity=87.93%
	276-388, 4085712 BARC 9BOV Bos taurus cDNA clone 9BOV2_M01 5', mRNA sequence (gb\|CK969953.1\|), blast E-value=3e-20, identity=87.93%
	276-388, BovGen_14848 normal cattle brain Bos taurus cDNA clone (gb\|CO886523.1\|), blast E-value=3e-20, identity=87.93%
	276-388, Hw_FAT_15_050513_F06 Bos taurus CF-24-HW fat cDNA library Bos (gb\|DV779482.1\|), blast E-value=3e-20, identity=87.93%
	276-388, LB03030.CR_F04 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE371266.1\|), blast E-value=3e-20, identity=87.93%

	30-924, gnl\|bosTau2\|chr3 (56994875-56993984)
	30-924, gnl\|Hg17\|chr1 (61637496-61638408)
	30-924, gnl\|Mm7\|chr4 (97508491-97509465)