Non-Coding RNA Search

Ss1.1-rpfco0122_g6.5

Sequence:


               
               TTCTTTTTCTTTTTCATGTTCTAGATGACCAAAACACTTCATTGATTTTTACCCTTTTGC
CTAAATCTTTGATATCCCTCCTTGATGTTCTGTGAATTCACTTGTTTAATCTCTTAAGTT
AAAATAATGAATTGTCCTGGTGACATACAATCTGTTGATTTAGAGGAAAGACCCTGAAAA
AGTATTGGAAACTAACTTTGGATATAATACTTGTAGCTGTTACTTTGCATCGTGGGCTTC
ATGGGAAGAACATGTTGCATTTATTTTGTCTTTATTAAAAGACTACTAGCCACAAGTTAC
TCACTGTAGTAACTGTTTTATCATCCCACTTTGATCTTCTTTAAAATATTAAATTTACAT
TTGCGATTCAAAACAGTATGCTGTCTTTCAGAACTAATATTTGAAGGATAAAAATATATG
AAGGAAAAAAAGCAGCCTGTGTAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTCTTTTTCTTTTTCATGTTCTAGATGACCAAAACACTTCATTGATTTTTACCCTTTTGC
CTAAATCTTTGATATCCCTCCTTGATGTTCTGTGAATTCACTTGTTTAATCTCTTAAGTT
AAAATAATGAATTGTCCTGGTGACATACAATCTGTTGATTTAGAGGAAAGACCCTGAAAA
AGTATTGGAAACTAACTTTGGATATAATACTTGTAGCTGTTACTTTGCATCGTGGGCTTC
ATGGGAAGAACATGTTGCATTTATTTTGTCTTTATTAAAAGACTACTAGCCACAAGTTAC
TCACTGTAGTAACTGTTTTATCATCCCACTTTGATCTTCTTTAAAATATTAAATTTACAT
TTGCGATTCAAAACAGTATGCTGTCTTTCAGAACTAATATTTGAAGGATAAAAATATATG
AAGGAAAAAAAGCAGCCTGTGTAG

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

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

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               159-391, + strand, RNAz p=0.980031

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


               
               159-391, + strand, RNAz p=0.980031

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               167-391, CR938857 Normalized and Subtracted bovine embryonic and 
(emb|CR938857.1|), blast E-value=0, identity=91.23% 
               

               
               172-391, ha84b01.g1 Canis cDNAs from testes cells Canis familiaris cDNA 
(gb|BM537578.1|), blast E-value=0, identity=89.19% 
               

               
               165-391, 605182 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB429370.1|), 
blast E-value=0, identity=91.3% 
               

               
               163-391, 4067772 BARC 10BOV Bos taurus cDNA clone 10BOV15_I13 3', mRNA 
(gb|CK943735.1|), blast E-value=0, identity=91.38% 
               

               
               159-391, 17000599999438 GRN_PRENEU Homo sapiens cDNA 5', mRNA sequence 
(gb|CN271979.1|), blast E-value=0, identity=87.82% 
               

               
               159-391, nac05e07.y1 Dog eye lens. Unnormalized (nac) Canis familiaris cDNA 
(gb|DN863813.1|), blast E-value=0, identity=89.36%

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


               
               167-391, CR938857 Normalized and Subtracted bovine embryonic and 
(emb|CR938857.1|), blast E-value=0, identity=91.23% 
               

               
               172-391, ha84b01.g1 Canis cDNAs from testes cells Canis familiaris cDNA 
(gb|BM537578.1|), blast E-value=0, identity=89.19% 
               

               
               165-391, 605182 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB429370.1|), 
blast E-value=0, identity=91.3% 
               

               
               163-391, 4067772 BARC 10BOV Bos taurus cDNA clone 10BOV15_I13 3', mRNA 
(gb|CK943735.1|), blast E-value=0, identity=91.38% 
               

               
               159-391, 17000599999438 GRN_PRENEU Homo sapiens cDNA 5', mRNA sequence 
(gb|CN271979.1|), blast E-value=0, identity=87.82% 
               

               
               159-391, nac05e07.y1 Dog eye lens. Unnormalized (nac) Canis familiaris cDNA 
(gb|DN863813.1|), blast E-value=0, identity=89.36%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-444, gnl|bosTau2|chr25 (17820950-17820511)
               

               
               1-444, gnl|Hg17|chr16 (22002798-22003229)
               

               
               1-444, gnl|Mm7|chr7 (116655882-116656309)

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


               
               1-444, gnl|bosTau2|chr25 (17820950-17820511)
               

               
               1-444, gnl|Hg17|chr16 (22002798-22003229)
               

               
               1-444, gnl|Mm7|chr7 (116655882-116656309)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               lyg (0.266205)
               

               
               eye (0.170503)
               

               
               fco (0.157208)
               

               
               liv (0.146284)

Expressed library(ies): 4 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


               
               lyg (0.266205)
               

               
               eye (0.170503)
               

               
               fco (0.157208)
               

               
               liv (0.146284)

	167-391, CR938857 Normalized and Subtracted bovine embryonic and (emb\|CR938857.1\|), blast E-value=0, identity=91.23%
	172-391, ha84b01.g1 Canis cDNAs from testes cells Canis familiaris cDNA (gb\|BM537578.1\|), blast E-value=0, identity=89.19%
	165-391, 605182 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB429370.1\|), blast E-value=0, identity=91.3%
	163-391, 4067772 BARC 10BOV Bos taurus cDNA clone 10BOV15_I13 3', mRNA (gb\|CK943735.1\|), blast E-value=0, identity=91.38%
	159-391, 17000599999438 GRN_PRENEU Homo sapiens cDNA 5', mRNA sequence (gb\|CN271979.1\|), blast E-value=0, identity=87.82%
	159-391, nac05e07.y1 Dog eye lens. Unnormalized (nac) Canis familiaris cDNA (gb\|DN863813.1\|), blast E-value=0, identity=89.36%

	1-444, gnl\|bosTau2\|chr25 (17820950-17820511)
	1-444, gnl\|Hg17\|chr16 (22002798-22003229)
	1-444, gnl\|Mm7\|chr7 (116655882-116656309)