Non-Coding RNA Search

Ss1.1-Pig3-SRG8026H11.5

Sequence:


               
               TGATGTTCATTGCTACCTTGAGCAAAGATATTCGTCCAGTCTGCCGCAAGTTCATGCAAG
ACGTAAATACCCTTCTACCTTCTCTCCCTCCACTCCCCGCCCGCTGCCTCCTCCCCTTCC
GCGCCCTCTTCCTCCAGACTCCCTTGTCCTTCATTCGCCAAGAAGGGGGCATGTGCCCAT
GTGAGAGGGCTGACTCCTTGAAGAGACACACAGAGGCAGAGACAGTTAGTGTTAGGGTCT
GCGCGGCGCCAGGGAAACTCCGGAAGACTTGGTCGGGTTAATGTGAGAGCGGGTAGCGTT
CGACTTTTTTTTTTTTTTCCAATCACAGCATTTTTGAACCTCTTCTCCCTCTTGGGGGAG
GGCAGGATTTTCTGCCCTACCACCCACCCATCGTCTCCTACATACCCCCTACAGCCACGC
ACCCTCAAGGTGGCATCGAGCATACAACCGGAGCCTTCTGCTCCCCAAACTCGTAACCTC
CCGGTGGCAGGAGAGCAAGAGAGGGACAGACAGTTGGCAGGGCCTGTCCAAAAGAAGAGC
GAACAGCGCAAATGAATCCACTCCCTCCCCACCTCCAGGGGTGGGGGCCCTTTGGCACCT
AGTCCCCGAGTCCCTACTCCTTCCCATCCGTACCTCCTCGCACCCGTCCGGAACCTCGGT
CGATGTGAGCCGGCAGCAGAGAAGCATCGTGGCGCG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TGATGTTCATTGCTACCTTGAGCAAAGATATTCGTCCAGTCTGCCGCAAGTTCATGCAAG
ACGTAAATACCCTTCTACCTTCTCTCCCTCCACTCCCCGCCCGCTGCCTCCTCCCCTTCC
GCGCCCTCTTCCTCCAGACTCCCTTGTCCTTCATTCGCCAAGAAGGGGGCATGTGCCCAT
GTGAGAGGGCTGACTCCTTGAAGAGACACACAGAGGCAGAGACAGTTAGTGTTAGGGTCT
GCGCGGCGCCAGGGAAACTCCGGAAGACTTGGTCGGGTTAATGTGAGAGCGGGTAGCGTT
CGACTTTTTTTTTTTTTTCCAATCACAGCATTTTTGAACCTCTTCTCCCTCTTGGGGGAG
GGCAGGATTTTCTGCCCTACCACCCACCCATCGTCTCCTACATACCCCCTACAGCCACGC
ACCCTCAAGGTGGCATCGAGCATACAACCGGAGCCTTCTGCTCCCCAAACTCGTAACCTC
CCGGTGGCAGGAGAGCAAGAGAGGGACAGACAGTTGGCAGGGCCTGTCCAAAAGAAGAGC
GAACAGCGCAAATGAATCCACTCCCTCCCCACCTCCAGGGGTGGGGGCCCTTTGGCACCT
AGTCCCCGAGTCCCTACTCCTTCCCATCCGTACCTCCTCGCACCCGTCCGGAACCTCGGT
CGATGTGAGCCGGCAGCAGAGAAGCATCGTGGCGCG

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

More info

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

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               80-199, - strand, RNAz p=0.912017
               

               
               279-472, - strand, RNAz p=0.998615
               

               
               549-667, - strand, RNAz p=0.536934

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


               
               80-199, - strand, RNAz p=0.912017
               

               
               279-472, - strand, RNAz p=0.998615
               

               
               549-667, - strand, RNAz p=0.536934

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               322-472, LB0252.CR_K20 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|DV869298.1|), 
blast E-value=0, identity=97.37% 
               

               
               322-472, 001023BTMA005533HT BTMA Bos taurus cDNA, mRNA sequence 
(gb|DY109516.1|), blast E-value=0, identity=97.37% 
               

               
               322-472, 000730BMLB001055HT BMLB Bos taurus cDNA, mRNA sequence 
(gb|DY177206.1|), blast E-value=0, identity=97.37% 
               

               
               322-472, 991219BPBA006611HT BPBA Bos taurus cDNA, mRNA sequence 
(gb|DY194271.1|), blast E-value=0, identity=97.37% 
               

               
               322-472, LB02980.CR_B16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE361934.1|), 
blast E-value=0, identity=97.37% 
               

               
               322-472, LB02987.CR.1_I02 GC_BGC-29 Bos taurus cDNA clone IMAGE 
(gb|EE370342.1|), blast E-value=0, identity=97.37%

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


               
               322-472, LB0252.CR_K20 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|DV869298.1|), 
blast E-value=0, identity=97.37% 
               

               
               322-472, 001023BTMA005533HT BTMA Bos taurus cDNA, mRNA sequence 
(gb|DY109516.1|), blast E-value=0, identity=97.37% 
               

               
               322-472, 000730BMLB001055HT BMLB Bos taurus cDNA, mRNA sequence 
(gb|DY177206.1|), blast E-value=0, identity=97.37% 
               

               
               322-472, 991219BPBA006611HT BPBA Bos taurus cDNA, mRNA sequence 
(gb|DY194271.1|), blast E-value=0, identity=97.37% 
               

               
               322-472, LB02980.CR_B16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE361934.1|), 
blast E-value=0, identity=97.37% 
               

               
               322-472, LB02987.CR.1_I02 GC_BGC-29 Bos taurus cDNA clone IMAGE 
(gb|EE370342.1|), blast E-value=0, identity=97.37%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-696, gnl|bosTau2|chr23 (23205907-23205219)
               

               
               1-696, gnl|Hg17|chr6 (31611184-31610493)
               

               
               1-696, gnl|Mm7|chr17 (33345146-33345828)

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


               
               1-696, gnl|bosTau2|chr23 (23205907-23205219)
               

               
               1-696, gnl|Hg17|chr6 (31611184-31610493)
               

               
               1-696, gnl|Mm7|chr17 (33345146-33345828)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               ese (0.126502)
               

               
               med (0.116252)

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


               
               ese (0.126502)
               

               
               med (0.116252)

	80-199, - strand, RNAz p=0.912017
	279-472, - strand, RNAz p=0.998615
	549-667, - strand, RNAz p=0.536934

	322-472, LB0252.CR_K20 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb\|DV869298.1\|), blast E-value=0, identity=97.37%
	322-472, 001023BTMA005533HT BTMA Bos taurus cDNA, mRNA sequence (gb\|DY109516.1\|), blast E-value=0, identity=97.37%
	322-472, 000730BMLB001055HT BMLB Bos taurus cDNA, mRNA sequence (gb\|DY177206.1\|), blast E-value=0, identity=97.37%
	322-472, 991219BPBA006611HT BPBA Bos taurus cDNA, mRNA sequence (gb\|DY194271.1\|), blast E-value=0, identity=97.37%
	322-472, LB02980.CR_B16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE361934.1\|), blast E-value=0, identity=97.37%
	322-472, LB02987.CR.1_I02 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE370342.1\|), blast E-value=0, identity=97.37%

	1-696, gnl\|bosTau2\|chr23 (23205907-23205219)
	1-696, gnl\|Hg17\|chr6 (31611184-31610493)
	1-696, gnl\|Mm7\|chr17 (33345146-33345828)