Non-Coding RNA Search

Ss1.1-Pig1-40A21.5

Sequence:


               
               CCAGACACACTTGCCAACTGTGCATGTGCATTTAGCATAAACATAGGCCCCTGGCCTTGT
CCAGGGAAGTGAATTTGGAGTGCCTGGATTGGACCAGGCCAGATGGGGAGTGGTGGATGT
TGGGGAGTTGGAGGGTCTTTCCCTGGTCTCATCCCCATCCTTTTTCCAAGCAAGATGCCC
TCTTCAGCCCATACAGGGTCTCTCTTCCCTAGGCCTCAGCAGGTTGTAGGTCCCAGATGG
ATCAGCCCTGTGGGTACAGATGGGTCCTGGGATTGAGTGCTTTTCGGGTATTTGGTTTCC
AAGCCCTCCAAACTTCCAGATGAGAAGGACCAAGGTGCCTCCAGGTCCACATACCCTCTG
CCCTTGCTGAACCCACATAGGAACTGTCCCATCCAGCCTCTGAACAGGAGCCTCTTCTGG
ACTCACAGAAGTCTCCCATCTCCTTTGCCTGGGCACTGTCCATGACACTCCAACCCCTTC
TCTAAGAGATGCAGCCCCTCGGAGCACTGCTGGCTGGTAGAACCATGCCTCACAACTCCA
GCCACAGGGAAGACATGGGCCATGTGGATAAGCCCCAGAAGGAGCAGGATGGGAAGAGGG
GAGGGGCATGGTTAGGGGCAGGGGGAGCCCTGGCCCCCAGTACCTCCTCCCCATTCCCCC
CTGAGCCTCCAGGGGCTTCAGGCAGCATCATCCCTGTCTACTGTGCCCTCCTAGCCACTG
TGGTCCTCGGTCTGCTTGCTTATGTGGCCTTCAAGT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCAGACACACTTGCCAACTGTGCATGTGCATTTAGCATAAACATAGGCCCCTGGCCTTGT
CCAGGGAAGTGAATTTGGAGTGCCTGGATTGGACCAGGCCAGATGGGGAGTGGTGGATGT
TGGGGAGTTGGAGGGTCTTTCCCTGGTCTCATCCCCATCCTTTTTCCAAGCAAGATGCCC
TCTTCAGCCCATACAGGGTCTCTCTTCCCTAGGCCTCAGCAGGTTGTAGGTCCCAGATGG
ATCAGCCCTGTGGGTACAGATGGGTCCTGGGATTGAGTGCTTTTCGGGTATTTGGTTTCC
AAGCCCTCCAAACTTCCAGATGAGAAGGACCAAGGTGCCTCCAGGTCCACATACCCTCTG
CCCTTGCTGAACCCACATAGGAACTGTCCCATCCAGCCTCTGAACAGGAGCCTCTTCTGG
ACTCACAGAAGTCTCCCATCTCCTTTGCCTGGGCACTGTCCATGACACTCCAACCCCTTC
TCTAAGAGATGCAGCCCCTCGGAGCACTGCTGGCTGGTAGAACCATGCCTCACAACTCCA
GCCACAGGGAAGACATGGGCCATGTGGATAAGCCCCAGAAGGAGCAGGATGGGAAGAGGG
GAGGGGCATGGTTAGGGGCAGGGGGAGCCCTGGCCCCCAGTACCTCCTCCCCATTCCCCC
CTGAGCCTCCAGGGGCTTCAGGCAGCATCATCCCTGTCTACTGTGCCCTCCTAGCCACTG
TGGTCCTCGGTCTGCTTGCTTATGTGGCCTTCAAGT

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

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

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               25-116, - strand, RNAz p=0.994918
               

               
               298-410, - strand, RNAz p=0.681698
               

               
               567-756, - strand, RNAz p=0.99992

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


               
               25-116, - strand, RNAz p=0.994918
               

               
               298-410, - strand, RNAz p=0.681698
               

               
               567-756, - strand, RNAz p=0.99992

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               579-692, - strand, RNAmicro p=0.99993
               

               
               574-675, + strand, RNAmicro p=0.998036
               

               
               40-123, + strand, RNAmicro p=0.958814

Predicted microRNA(s): 3 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


               
               579-692, - strand, RNAmicro p=0.99993
               

               
               574-675, + strand, RNAmicro p=0.998036
               

               
               40-123, + strand, RNAmicro p=0.958814

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               567-756, DB801464 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB801464.1|), blast E-value=0, identity=98.95% 
               

               
               617-756, 4121308 BARC 8BOV Bos taurus cDNA clone 8BOV_34N05 5', mRNA 
(gb|CN787223.1|), blast E-value=0, identity=92.86% 
               

               
               617-756, LB0162.CR_J12 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT809093.1|), 
blast E-value=0, identity=92.86% 
               

               
               617-756, LB01628.CR_G18 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT815839.1|), 
blast E-value=0, identity=92.86% 
               

               
               617-756, LB01728.CR_C03 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV819131.1|), 
blast E-value=0, identity=92.86% 
               

               
               617-756, 001017BEMN049810HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY105491.1|), blast E-value=0, identity=92.86%

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


               
               567-756, DB801464 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB801464.1|), blast E-value=0, identity=98.95% 
               

               
               617-756, 4121308 BARC 8BOV Bos taurus cDNA clone 8BOV_34N05 5', mRNA 
(gb|CN787223.1|), blast E-value=0, identity=92.86% 
               

               
               617-756, LB0162.CR_J12 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT809093.1|), 
blast E-value=0, identity=92.86% 
               

               
               617-756, LB01628.CR_G18 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT815839.1|), 
blast E-value=0, identity=92.86% 
               

               
               617-756, LB01728.CR_C03 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV819131.1|), 
blast E-value=0, identity=92.86% 
               

               
               617-756, 001017BEMN049810HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY105491.1|), blast E-value=0, identity=92.86%

Aligned organism(s): 13 entry(ies)

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Aligned organism(s): 13 entry(ies)

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               25-410, gnl|bosTau2|chr22 (41071344-41071710)
               

               
               25-410, gnl|canFam2|chr20 (44805633-44804910)
               

               
               25-410, gnl|hg17|chr3 (47026601-47027378)
               

               
               25-410, gnl|Hg17|chr3 (47027097-47027460)
               

               
               25-410, gnl|loxAfr1|scaffold_3205 (108901-108074)
               

               
               25-410, gnl|mm7|chr9 (110322131-110321404)
               

               
               25-410, gnl|oryCun1|scaffold_206213 (153547-154297)
               

               
               25-410, gnl|panTro1|chr2 (48484744-48485522)
               

               
               25-410, gnl|rheMac2|chr2 (89531067-89530289)
               

               
               25-410, gnl|rn3|chr8 (115024773-115024057)
               


               
               567-756, gnl|bosTau2|chr22 (41073229-41073412)
               

               
               567-756, gnl|Hg17|chr3 (47028814-47029004)
               

               
               567-756, gnl|Mm7|chr9 (110319964-110319775)

Aligned organism(s): 13 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


               
               25-410, gnl|bosTau2|chr22 (41071344-41071710)
               

               
               25-410, gnl|canFam2|chr20 (44805633-44804910)
               

               
               25-410, gnl|hg17|chr3 (47026601-47027378)
               

               
               25-410, gnl|Hg17|chr3 (47027097-47027460)
               

               
               25-410, gnl|loxAfr1|scaffold_3205 (108901-108074)
               

               
               25-410, gnl|mm7|chr9 (110322131-110321404)
               

               
               25-410, gnl|oryCun1|scaffold_206213 (153547-154297)
               

               
               25-410, gnl|panTro1|chr2 (48484744-48485522)
               

               
               25-410, gnl|rheMac2|chr2 (89531067-89530289)
               

               
               25-410, gnl|rn3|chr8 (115024773-115024057)
               


               
               567-756, gnl|bosTau2|chr22 (41073229-41073412)
               

               
               567-756, gnl|Hg17|chr3 (47028814-47029004)
               

               
               567-756, gnl|Mm7|chr9 (110319964-110319775)

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)

	25-116, - strand, RNAz p=0.994918
	298-410, - strand, RNAz p=0.681698
	567-756, - strand, RNAz p=0.99992

	579-692, - strand, RNAmicro p=0.99993
	574-675, + strand, RNAmicro p=0.998036
	40-123, + strand, RNAmicro p=0.958814

	567-756, DB801464 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB801464.1\|), blast E-value=0, identity=98.95%
	617-756, 4121308 BARC 8BOV Bos taurus cDNA clone 8BOV_34N05 5', mRNA (gb\|CN787223.1\|), blast E-value=0, identity=92.86%
	617-756, LB0162.CR_J12 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT809093.1\|), blast E-value=0, identity=92.86%
	617-756, LB01628.CR_G18 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT815839.1\|), blast E-value=0, identity=92.86%
	617-756, LB01728.CR_C03 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|DV819131.1\|), blast E-value=0, identity=92.86%
	617-756, 001017BEMN049810HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY105491.1\|), blast E-value=0, identity=92.86%

	25-410, gnl\|bosTau2\|chr22 (41071344-41071710)
	25-410, gnl\|canFam2\|chr20 (44805633-44804910)
	25-410, gnl\|hg17\|chr3 (47026601-47027378)
	25-410, gnl\|Hg17\|chr3 (47027097-47027460)
	25-410, gnl\|loxAfr1\|scaffold_3205 (108901-108074)
	25-410, gnl\|mm7\|chr9 (110322131-110321404)
	25-410, gnl\|oryCun1\|scaffold_206213 (153547-154297)
	25-410, gnl\|panTro1\|chr2 (48484744-48485522)
	25-410, gnl\|rheMac2\|chr2 (89531067-89530289)
	25-410, gnl\|rn3\|chr8 (115024773-115024057)

	567-756, gnl\|bosTau2\|chr22 (41073229-41073412)
	567-756, gnl\|Hg17\|chr3 (47028814-47029004)
	567-756, gnl\|Mm7\|chr9 (110319964-110319775)