Non-Coding RNA Search

Ss1.1-rplac_18128.5

Sequence:


               
               CTGAGTCCGTCCCCCCCACCCCCGCCCATTGCTGGTAATTCTGAAAGATACGACATTGCT
GAGCCTTACTGGGTTGAAAAGGAGTAGCTCAGACCTGTTTTTATTTGCTCAATAACTCGA
CTCATTTGTATCTTTTCAGCACTTATTTTAATGTAAGAAAGATGTTTGTTTTGTTTTTAT
AAAATACATGGGGACAATGCTTTAAGTTTTTATACTTTCTGGAGCTGTTTTTGTGTTCTA
AAAGTACGATGAGCCTTACTGTAATTAGTGTGGCAGAGTAATAAACATCAGTGGCAGGCC
ATTGATTATGTCATGACTGCCGCGCATCCGCAGATTGGTGTCAAAGACATTCACTATGTT
TTCATGGTTCATAGTCTCTTCTCCCCAGGGTGATTGCCTCCAGAGTCGTCCCCCCCATCC
ACACTCCAGGTTCATGCACAGGTGTAGCCTGTCCTGCTTCCATTCTCCCCAAGTCGCCCT
GGTGGGAGTGATGGTGGGAGGGGAATGGTCAGGACAAAAATGATATTC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTGAGTCCGTCCCCCCCACCCCCGCCCATTGCTGGTAATTCTGAAAGATACGACATTGCT
GAGCCTTACTGGGTTGAAAAGGAGTAGCTCAGACCTGTTTTTATTTGCTCAATAACTCGA
CTCATTTGTATCTTTTCAGCACTTATTTTAATGTAAGAAAGATGTTTGTTTTGTTTTTAT
AAAATACATGGGGACAATGCTTTAAGTTTTTATACTTTCTGGAGCTGTTTTTGTGTTCTA
AAAGTACGATGAGCCTTACTGTAATTAGTGTGGCAGAGTAATAAACATCAGTGGCAGGCC
ATTGATTATGTCATGACTGCCGCGCATCCGCAGATTGGTGTCAAAGACATTCACTATGTT
TTCATGGTTCATAGTCTCTTCTCCCCAGGGTGATTGCCTCCAGAGTCGTCCCCCCCATCC
ACACTCCAGGTTCATGCACAGGTGTAGCCTGTCCTGCTTCCATTCTCCCCAAGTCGCCCT
GGTGGGAGTGATGGTGGGAGGGGAATGGTCAGGACAAAAATGATATTC

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

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

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               243-402, - strand, RNAz p=0.999037

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


               
               243-402, - strand, RNAz p=0.999037

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               302-406, + strand, RNAmicro p=0.998986

Predicted microRNA(s): 1 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


               
               302-406, + strand, RNAmicro p=0.998986

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               243-400, 528678 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BM287865.1|), 
blast E-value=0, identity=94.3% 
               

               
               243-400, VQT602700454.R1 CSEQFXL06 stomach-reticulum Bos taurus cDNA, mRNA 
(gb|CB168648.1|), blast E-value=0, identity=94.94% 
               

               
               243-393, MMSP0021_H07 MMSP Macaca mulatta cDNA, mRNA sequence (gb|CB552879.1|), 
blast E-value=6e-38, identity=89.4% 
               

               
               243-373, LIB30320_038_D08_SP6_1 LIB30320 Canis familiaris cDNA clone 
(gb|DN266185.1|), blast E-value=4e-36, identity=90.84% 
               

               
               243-373, LIB38529_017_A03_T7_1 LIB38529 Canis familiaris cDNA clone 
(gb|DN375533.1|), blast E-value=4e-36, identity=90.84% 
               

               
               243-328, LB0166.CR_B05 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT817054.1|), 
blast E-value=2e-37, identity=98.84%

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


               
               243-400, 528678 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BM287865.1|), 
blast E-value=0, identity=94.3% 
               

               
               243-400, VQT602700454.R1 CSEQFXL06 stomach-reticulum Bos taurus cDNA, mRNA 
(gb|CB168648.1|), blast E-value=0, identity=94.94% 
               

               
               243-393, MMSP0021_H07 MMSP Macaca mulatta cDNA, mRNA sequence (gb|CB552879.1|), 
blast E-value=6e-38, identity=89.4% 
               

               
               243-373, LIB30320_038_D08_SP6_1 LIB30320 Canis familiaris cDNA clone 
(gb|DN266185.1|), blast E-value=4e-36, identity=90.84% 
               

               
               243-373, LIB38529_017_A03_T7_1 LIB38529 Canis familiaris cDNA clone 
(gb|DN375533.1|), blast E-value=4e-36, identity=90.84% 
               

               
               243-328, LB0166.CR_B05 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT817054.1|), 
blast E-value=2e-37, identity=98.84%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               22-527, gnl|bosTau2|chr5 (30026241-30026759)
               

               
               22-527, gnl|Hg17|chr12 (66338768-66339273)
               

               
               22-527, gnl|Mm7|chr10 (118259131-118258588)

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


               
               22-527, gnl|bosTau2|chr5 (30026241-30026759)
               

               
               22-527, gnl|Hg17|chr12 (66338768-66339273)
               

               
               22-527, gnl|Mm7|chr10 (118259131-118258588)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               fco (0.157208)
               

               
               pla (0.133672)

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


               
               fco (0.157208)
               

               
               pla (0.133672)

	243-400, 528678 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BM287865.1\|), blast E-value=0, identity=94.3%
	243-400, VQT602700454.R1 CSEQFXL06 stomach-reticulum Bos taurus cDNA, mRNA (gb\|CB168648.1\|), blast E-value=0, identity=94.94%
	243-393, MMSP0021_H07 MMSP Macaca mulatta cDNA, mRNA sequence (gb\|CB552879.1\|), blast E-value=6e-38, identity=89.4%
	243-373, LIB30320_038_D08_SP6_1 LIB30320 Canis familiaris cDNA clone (gb\|DN266185.1\|), blast E-value=4e-36, identity=90.84%
	243-373, LIB38529_017_A03_T7_1 LIB38529 Canis familiaris cDNA clone (gb\|DN375533.1\|), blast E-value=4e-36, identity=90.84%
	243-328, LB0166.CR_B05 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT817054.1\|), blast E-value=2e-37, identity=98.84%

	22-527, gnl\|bosTau2\|chr5 (30026241-30026759)
	22-527, gnl\|Hg17\|chr12 (66338768-66339273)
	22-527, gnl\|Mm7\|chr10 (118259131-118258588)