Non-Coding RNA Search

Ss1.1-Pig3-SRG8020F18.5

Sequence:


               
               ACAGTGGGAGCCAAGAAGAAAGGTTTGCTCCCGGGTGGAACAGGGATTATCCTCCTCCTC
CCCTTAAGAGTCATGTTCAAGAGAGACACTCTGGCAACTTTCCTGGCAGAGATTCACTTC
CCTGTGATTTCCAGGGGCATTCGGGGCCTCCCTTTGCAAATGTAGAGGAGCATTCTTTCA
GCTATGGAGCTAGAGATGGACTGCATGGTGACTATCGAGGAGGGGAGGGACCTGGACATG
ATTTCAGGGGGGGAGATTTTTCATCTTCCGATTTCCAGAGCAGAGATTCAACACAGTTGG
ACTTCAGGGGTAGGGATATACATTCTGGGGATTTTCGGGATAGAGAAGGACCACCTATGG
ACTATAGAGGTGAAGATGGCACTTCTGTGGATTATAGAGGTAGGGAAACATCTCACATGA
ACTACAGAGACAGGGATGCTCACACTGTTGATTTCAGAGGTAGGGATGCTCCTCCTCCTG
ATTTCAGGGGCCGGGGCACTTATGATTTAGATTTTAGAGGTCGGGATGGATCCCATGCAG
ATTTTAGGGGAACAGTCCCTCCCCTGCTTCTTTCTTTCTCTCAATTTTTCCTTTTCCCTC
CCTCATCCTTTTCAGATTTTCTCTCACCCAATAATGTAAAACTATTGTGTACGGGTTCCT
CCATCCTTTTCCCCTCAATCTTTTTTCCCTTCAAAGGAAAAAAAATGTTCAGAGGTCCCT
GTCTTTCTCTCTAGCCTCATCTTCCTGCCAATAGTTAGCCCCTCTATAATGTTGGATACT
CCTCACATGCTGAGTTTCTGGCCTTTTCTGACACTCAGCAAACTGGGGAGAGGGCAGGGA
GGCACCCTGGACCTTGGGCCTTCCAGCCTCCTTCCCCACCTCTTACCCAAACCTCCCTCT
TGGGAACTCCTCAGGGACAACTACTGCTGAGTTTGGGCACACCCCCATGGTGGAGGCCAG
GTAGCAATAGAC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACAGTGGGAGCCAAGAAGAAAGGTTTGCTCCCGGGTGGAACAGGGATTATCCTCCTCCTC
CCCTTAAGAGTCATGTTCAAGAGAGACACTCTGGCAACTTTCCTGGCAGAGATTCACTTC
CCTGTGATTTCCAGGGGCATTCGGGGCCTCCCTTTGCAAATGTAGAGGAGCATTCTTTCA
GCTATGGAGCTAGAGATGGACTGCATGGTGACTATCGAGGAGGGGAGGGACCTGGACATG
ATTTCAGGGGGGGAGATTTTTCATCTTCCGATTTCCAGAGCAGAGATTCAACACAGTTGG
ACTTCAGGGGTAGGGATATACATTCTGGGGATTTTCGGGATAGAGAAGGACCACCTATGG
ACTATAGAGGTGAAGATGGCACTTCTGTGGATTATAGAGGTAGGGAAACATCTCACATGA
ACTACAGAGACAGGGATGCTCACACTGTTGATTTCAGAGGTAGGGATGCTCCTCCTCCTG
ATTTCAGGGGCCGGGGCACTTATGATTTAGATTTTAGAGGTCGGGATGGATCCCATGCAG
ATTTTAGGGGAACAGTCCCTCCCCTGCTTCTTTCTTTCTCTCAATTTTTCCTTTTCCCTC
CCTCATCCTTTTCAGATTTTCTCTCACCCAATAATGTAAAACTATTGTGTACGGGTTCCT
CCATCCTTTTCCCCTCAATCTTTTTTCCCTTCAAAGGAAAAAAAATGTTCAGAGGTCCCT
GTCTTTCTCTCTAGCCTCATCTTCCTGCCAATAGTTAGCCCCTCTATAATGTTGGATACT
CCTCACATGCTGAGTTTCTGGCCTTTTCTGACACTCAGCAAACTGGGGAGAGGGCAGGGA
GGCACCCTGGACCTTGGGCCTTCCAGCCTCCTTCCCCACCTCTTACCCAAACCTCCCTCT
TGGGAACTCCTCAGGGACAACTACTGCTGAGTTTGGGCACACCCCCATGGTGGAGGCCAG
GTAGCAATAGAC

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

More info

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

Help | Less info


               
               1-159, - strand, RNAz p=0.760725
               

               
               729-972, - strand, RNAz p=0.999746

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


               
               1-159, - strand, RNAz p=0.760725
               

               
               729-972, - strand, RNAz p=0.999746

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               786-877, + strand, RNAmicro p=0.999998
               

               
               827-932, - strand, RNAmicro p=0.99877

Predicted microRNA(s): 2 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


               
               786-877, + strand, RNAmicro p=0.999998
               

               
               827-932, - strand, RNAmicro p=0.99877

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               729-905, AR026B05PBC30IB05S Porcine Peripheral Blood Cell cDNA library, Cot 
(gb|BI119342.1|), blast E-value=0, identity=98.31% 
               

               
               729-972, AR041G05PBC30HG05S Porcine Peripheral Blood Cell cDNA library, Cot 
(gb|BI186554.1|), blast E-value=0, identity=100% 
               

               
               735-968, LIB38527_001_D04_T7_1 LIB38527 Canis familiaris cDNA clone 
(gb|DN373726.1|), blast E-value=0, identity=89.74% 
               

               
               735-968, nae36f03.y1 Dog eye eye minus lens and cornea. Unnormalized (nae) 
(gb|DN880843.1|), blast E-value=0, identity=89.74% 
               

               
               813-968, 1477083 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT894450.1|), 
blast E-value=0, identity=96.15% 
               

               
               736-968, 1480443 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT901248.1|), 
blast E-value=0, identity=94.85%

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


               
               729-905, AR026B05PBC30IB05S Porcine Peripheral Blood Cell cDNA library, Cot 
(gb|BI119342.1|), blast E-value=0, identity=98.31% 
               

               
               729-972, AR041G05PBC30HG05S Porcine Peripheral Blood Cell cDNA library, Cot 
(gb|BI186554.1|), blast E-value=0, identity=100% 
               

               
               735-968, LIB38527_001_D04_T7_1 LIB38527 Canis familiaris cDNA clone 
(gb|DN373726.1|), blast E-value=0, identity=89.74% 
               

               
               735-968, nae36f03.y1 Dog eye eye minus lens and cornea. Unnormalized (nae) 
(gb|DN880843.1|), blast E-value=0, identity=89.74% 
               

               
               813-968, 1477083 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT894450.1|), 
blast E-value=0, identity=96.15% 
               

               
               736-968, 1480443 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT901248.1|), 
blast E-value=0, identity=94.85%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-552, gnl|bosTau2|chr22 (38260746-38261297)
               

               
               1-552, gnl|Hg17|chr3 (49979903-49980454)
               

               
               1-552, gnl|Mm7|chr9 (107585065-107584514)
               


               
               592-972, gnl|bosTau2|chr5 (33140055-33140430)
               

               
               592-972, gnl|Hg17|chr12 (55278125-55277744)
               

               
               592-972, gnl|Mm7|chr10 (127628786-127629180)

Aligned organism(s): 6 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


               
               1-552, gnl|bosTau2|chr22 (38260746-38261297)
               

               
               1-552, gnl|Hg17|chr3 (49979903-49980454)
               

               
               1-552, gnl|Mm7|chr9 (107585065-107584514)
               


               
               592-972, gnl|bosTau2|chr5 (33140055-33140430)
               

               
               592-972, gnl|Hg17|chr12 (55278125-55277744)
               

               
               592-972, gnl|Mm7|chr10 (127628786-127629180)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               nmm (0.132802)

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


               
               nmm (0.132802)

	1-159, - strand, RNAz p=0.760725
	729-972, - strand, RNAz p=0.999746

	786-877, + strand, RNAmicro p=0.999998
	827-932, - strand, RNAmicro p=0.99877

	729-905, AR026B05PBC30IB05S Porcine Peripheral Blood Cell cDNA library, Cot (gb\|BI119342.1\|), blast E-value=0, identity=98.31%
	729-972, AR041G05PBC30HG05S Porcine Peripheral Blood Cell cDNA library, Cot (gb\|BI186554.1\|), blast E-value=0, identity=100%
	735-968, LIB38527_001_D04_T7_1 LIB38527 Canis familiaris cDNA clone (gb\|DN373726.1\|), blast E-value=0, identity=89.74%
	735-968, nae36f03.y1 Dog eye eye minus lens and cornea. Unnormalized (nae) (gb\|DN880843.1\|), blast E-value=0, identity=89.74%
	813-968, 1477083 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT894450.1\|), blast E-value=0, identity=96.15%
	736-968, 1480443 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT901248.1\|), blast E-value=0, identity=94.85%

	1-552, gnl\|bosTau2\|chr22 (38260746-38261297)
	1-552, gnl\|Hg17\|chr3 (49979903-49980454)
	1-552, gnl\|Mm7\|chr9 (107585065-107584514)

	592-972, gnl\|bosTau2\|chr5 (33140055-33140430)
	592-972, gnl\|Hg17\|chr12 (55278125-55277744)
	592-972, gnl\|Mm7\|chr10 (127628786-127629180)