Non-Coding RNA Search

Ss1.1-OvaP-UMC-pputal1-003-h06.3

Sequence:


               
               AGCTTTGAGGGGGAGCGGCTGGCCTGGCAGGCGGAGAAGGAGCAGGTGATCCGCTACCAG
AAGCAGCTGCAGCACAACTACATCCAGATGTACCGACGCAACAGGCAGCTGGAGCAGGAG
CTACAGCAGCTCAGCCTGGAGCTGGAGGCCCGGGAACTCGCCGACCTGGGCCTGGCGGAG
CCAGCTCCCTGCATCTGCCTGGAGGAGATCACCGCCACCGAAATCTAGGGCCTTGGCATC
CAGCTCTGCGGGGGCTCTACTGAATAGGGGCAGTAGCCTCAGGTCTGAGGGCCCCAGAGC
CACTCAGTCCCTGGGATCCATGCCTCTGGGCCTCTGCCAAGGACTCGGGGCTGTGCTATG
AGTTAGATGAGCAAGATCAGACTCCTTGAGGATCCTTGTGTTCACTGTCACCCGCAGGCT
CCCACTCACTTGACCTGTTTCACTCCCAGCTGCTGCCATTGCCACTCTGCCAACCCTGTT
CACCCCAGGCACTCACCAGCCCACCCAGCCAGGGGGCTCGGGAGAGCAAGGGGCTCCCTC
ATCTCCAAATTCTCCCCCACCGCAAAGCCAGAGAGAGCCAGACAGCGCCAGCTGCTCCAG
ATGTGCCTGCCCCCCCGCGCCCATGTTAGGGGAACAGGGCTGGGACTGGGGTCTGATCCC
CAGACTCTAGCTCTGCAGCCTCCTGGGGTGAGGGGGCTGTAGTCAGACCAAAGGAAGAAC
TCACAAATGTCTTGTTTATTTGTGTTTGTGACCAAGTGGCCCCACACCCAGGTTTATGGC
GTCATTTTCACTTGTATATTTTTCACATTGTAAATTTCTTGTACAAACCCAAAGAAAAAA
TTAAAAAAAATTTTTTTTGTTTTTAAAAAATGATGAGTGTGCTGGATAAAGATTATGGGA
ACTTGTTTGGCCCCCACACCCTCTTTATTTGCAGGCTGTTCTCCTACCCCTCAGAGGACT
TGAGGGAGAAAGGGCGATGGAAGAGGACAGATCCAGCGGAAAGTGTGAGATTCTCGTGGA
CCACAACATGAAACGGTCCCTCAGGGTTTGAGAAAATAGGAAAGCCTCCTATCTTGTCCC
TTGCACAGAACATTACTGGGGGCTGGGTGCAGGGACCCTTTGAGGGCCCTAGCTGAGAGT
CTGTGTCCCTCACTTTTGGGGGAGATCACGAGAAAGTGCACACCAATCCCAAGCTCCAGA
CCTTGGGATTCTCCACCCACTTCCTGTCTTGGAAGGTTGGGGGAATGCGAGTGACACAGG
CTGCCCAGTAGCACCTTGTCCTTGACACCAAGTTTATCTGGAATGGGTAGAGCTTTAGTG
ACAACTGGGGAGGGAGAAAGTGGGGGAATCTTGAACCACCACTGTGAAGCTTCGGGAGTA
GACAAGGCAAGCGGGAGTGGAAGGTTCCTGAATCTTGAGAATGGTAGGTGAGGTGGAGGG
ATGGCAGGATTCTCTGGAGTCAGTAGGAAGAGTTCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGCTTTGAGGGGGAGCGGCTGGCCTGGCAGGCGGAGAAGGAGCAGGTGATCCGCTACCAG
AAGCAGCTGCAGCACAACTACATCCAGATGTACCGACGCAACAGGCAGCTGGAGCAGGAG
CTACAGCAGCTCAGCCTGGAGCTGGAGGCCCGGGAACTCGCCGACCTGGGCCTGGCGGAG
CCAGCTCCCTGCATCTGCCTGGAGGAGATCACCGCCACCGAAATCTAGGGCCTTGGCATC
CAGCTCTGCGGGGGCTCTACTGAATAGGGGCAGTAGCCTCAGGTCTGAGGGCCCCAGAGC
CACTCAGTCCCTGGGATCCATGCCTCTGGGCCTCTGCCAAGGACTCGGGGCTGTGCTATG
AGTTAGATGAGCAAGATCAGACTCCTTGAGGATCCTTGTGTTCACTGTCACCCGCAGGCT
CCCACTCACTTGACCTGTTTCACTCCCAGCTGCTGCCATTGCCACTCTGCCAACCCTGTT
CACCCCAGGCACTCACCAGCCCACCCAGCCAGGGGGCTCGGGAGAGCAAGGGGCTCCCTC
ATCTCCAAATTCTCCCCCACCGCAAAGCCAGAGAGAGCCAGACAGCGCCAGCTGCTCCAG
ATGTGCCTGCCCCCCCGCGCCCATGTTAGGGGAACAGGGCTGGGACTGGGGTCTGATCCC
CAGACTCTAGCTCTGCAGCCTCCTGGGGTGAGGGGGCTGTAGTCAGACCAAAGGAAGAAC
TCACAAATGTCTTGTTTATTTGTGTTTGTGACCAAGTGGCCCCACACCCAGGTTTATGGC
GTCATTTTCACTTGTATATTTTTCACATTGTAAATTTCTTGTACAAACCCAAAGAAAAAA
TTAAAAAAAATTTTTTTTGTTTTTAAAAAATGATGAGTGTGCTGGATAAAGATTATGGGA
ACTTGTTTGGCCCCCACACCCTCTTTATTTGCAGGCTGTTCTCCTACCCCTCAGAGGACT
TGAGGGAGAAAGGGCGATGGAAGAGGACAGATCCAGCGGAAAGTGTGAGATTCTCGTGGA
CCACAACATGAAACGGTCCCTCAGGGTTTGAGAAAATAGGAAAGCCTCCTATCTTGTCCC
TTGCACAGAACATTACTGGGGGCTGGGTGCAGGGACCCTTTGAGGGCCCTAGCTGAGAGT
CTGTGTCCCTCACTTTTGGGGGAGATCACGAGAAAGTGCACACCAATCCCAAGCTCCAGA
CCTTGGGATTCTCCACCCACTTCCTGTCTTGGAAGGTTGGGGGAATGCGAGTGACACAGG
CTGCCCAGTAGCACCTTGTCCTTGACACCAAGTTTATCTGGAATGGGTAGAGCTTTAGTG
ACAACTGGGGAGGGAGAAAGTGGGGGAATCTTGAACCACCACTGTGAAGCTTCGGGAGTA
GACAAGGCAAGCGGGAGTGGAAGGTTCCTGAATCTTGAGAATGGTAGGTGAGGTGGAGGG
ATGGCAGGATTCTCTGGAGTCAGTAGGAAGAGTTCT

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

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

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               40-199, - strand, RNAz p=0.998049
               

               
               476-778, - strand, RNAz p=0.999812
               

               
               890-1001, - strand, RNAz p=0.973672

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


               
               40-199, - strand, RNAz p=0.998049
               

               
               476-778, - strand, RNAz p=0.999812
               

               
               890-1001, - strand, RNAz p=0.973672

Predicted microRNA(s): 4 entry(ies)

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Predicted microRNA(s): 4 entry(ies)

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               40-169, - strand, RNAmicro p=0.999999
               

               
               658-753, + strand, RNAmicro p=0.999992
               

               
               50-146, + strand, RNAmicro p=0.999905
               

               
               531-639, - strand, RNAmicro p=0.999346

Predicted microRNA(s): 4 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


               
               40-169, - strand, RNAmicro p=0.999999
               

               
               658-753, + strand, RNAmicro p=0.999992
               

               
               50-146, + strand, RNAmicro p=0.999905
               

               
               531-639, - strand, RNAmicro p=0.999346

Similar Transcript(s): 12 entry(ies)

More info

Similar Transcript(s): 12 entry(ies)

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               40-199, 484404 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI975854.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, 510165 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BM106435.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, 1406852 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN548597.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, LB01720.CR_M06 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV816759.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, LB02020.CR_E13 GC_BGC-20 Bos taurus cDNA clone IMAGE (gb|DV824808.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, 000328BMPA005726HT BMPA Bos taurus cDNA, mRNA sequence (gb|DY083838.1|), 
blast E-value=0, identity=96.25% 
               

               
               629-609, CH3#039_G02T3 Canine heart normalized cDNA Library in pBluescript 
(gb|CF413560.1|), blast E-value=0.000000000005, identity=88.16% 
               

               
               629-609, CH3#039_G02T7 Canine heart normalized cDNA Library in pBluescript 
(gb|CF413561.1|), blast E-value=0.000000000005, identity=88.16% 
               

               
               635-609, CT020003B20C05 Equine Articular Cartilage cDNA Library Equus 
(gb|CX592986.1|), blast E-value=8e-39, identity=91.47% 
               

               
               629-609, GL-Cf-2312 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN745520.1|), blast E-value=0.000000000005, identity=88.16% 
               

               
               642-778, POSM0605008_E04R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV898232.1|), blast E-value=0, identity=100% 
               

               
               486-778, PADT0811001_L13F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB411500.1|), blast E-value=0, identity=97.61%

Similar Transcript(s): 12 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


               
               40-199, 484404 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI975854.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, 510165 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BM106435.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, 1406852 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN548597.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, LB01720.CR_M06 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV816759.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, LB02020.CR_E13 GC_BGC-20 Bos taurus cDNA clone IMAGE (gb|DV824808.1|), 
blast E-value=0, identity=96.25% 
               

               
               40-199, 000328BMPA005726HT BMPA Bos taurus cDNA, mRNA sequence (gb|DY083838.1|), 
blast E-value=0, identity=96.25% 
               

               
               629-609, CH3#039_G02T3 Canine heart normalized cDNA Library in pBluescript 
(gb|CF413560.1|), blast E-value=0.000000000005, identity=88.16% 
               

               
               629-609, CH3#039_G02T7 Canine heart normalized cDNA Library in pBluescript 
(gb|CF413561.1|), blast E-value=0.000000000005, identity=88.16% 
               

               
               635-609, CT020003B20C05 Equine Articular Cartilage cDNA Library Equus 
(gb|CX592986.1|), blast E-value=8e-39, identity=91.47% 
               

               
               629-609, GL-Cf-2312 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN745520.1|), blast E-value=0.000000000005, identity=88.16% 
               

               
               642-778, POSM0605008_E04R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV898232.1|), blast E-value=0, identity=100% 
               

               
               486-778, PADT0811001_L13F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB411500.1|), blast E-value=0, identity=97.61%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1474, gnl|bosTau2|chr26 (13409603-13411097)
               

               
               1-1474, gnl|Hg17|chr10 (102756688-102758215)
               

               
               1-1474, gnl|Mm7|chr19 (44920131-44921499)

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


               
               1-1474, gnl|bosTau2|chr26 (13409603-13411097)
               

               
               1-1474, gnl|Hg17|chr10 (102756688-102758215)
               

               
               1-1474, gnl|Mm7|chr19 (44920131-44921499)

Expressed library(ies): 11 entry(ies)

More info

Expressed library(ies): 11 entry(ies)

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               amn (0.417711)
               

               
               nco (0.323468)
               

               
               cag (0.302389)
               

               
               pla (0.267344)
               

               
               cli (0.152812)
               

               
               hyp (0.142837)
               

               
               nca (0.136874)
               

               
               che (0.136314)
               

               
               nmm (0.132802)
               

               
               eru (0.120048)
               

               
               ecc (0.115035)

Expressed library(ies): 11 entry(ies)

Help | Less info

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


               
               amn (0.417711)
               

               
               nco (0.323468)
               

               
               cag (0.302389)
               

               
               pla (0.267344)
               

               
               cli (0.152812)
               

               
               hyp (0.142837)
               

               
               nca (0.136874)
               

               
               che (0.136314)
               

               
               nmm (0.132802)
               

               
               eru (0.120048)
               

               
               ecc (0.115035)

	40-199, - strand, RNAz p=0.998049
	476-778, - strand, RNAz p=0.999812
	890-1001, - strand, RNAz p=0.973672

	40-169, - strand, RNAmicro p=0.999999
	658-753, + strand, RNAmicro p=0.999992
	50-146, + strand, RNAmicro p=0.999905
	531-639, - strand, RNAmicro p=0.999346

	40-199, 484404 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI975854.1\|), blast E-value=0, identity=96.25%
	40-199, 510165 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BM106435.1\|), blast E-value=0, identity=96.25%
	40-199, 1406852 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN548597.1\|), blast E-value=0, identity=96.25%
	40-199, LB01720.CR_M06 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|DV816759.1\|), blast E-value=0, identity=96.25%
	40-199, LB02020.CR_E13 GC_BGC-20 Bos taurus cDNA clone IMAGE (gb\|DV824808.1\|), blast E-value=0, identity=96.25%
	40-199, 000328BMPA005726HT BMPA Bos taurus cDNA, mRNA sequence (gb\|DY083838.1\|), blast E-value=0, identity=96.25%
	629-609, CH3#039_G02T3 Canine heart normalized cDNA Library in pBluescript (gb\|CF413560.1\|), blast E-value=0.000000000005, identity=88.16%
	629-609, CH3#039_G02T7 Canine heart normalized cDNA Library in pBluescript (gb\|CF413561.1\|), blast E-value=0.000000000005, identity=88.16%
	635-609, CT020003B20C05 Equine Articular Cartilage cDNA Library Equus (gb\|CX592986.1\|), blast E-value=8e-39, identity=91.47%
	629-609, GL-Cf-2312 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN745520.1\|), blast E-value=0.000000000005, identity=88.16%
	642-778, POSM0605008_E04R porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV898232.1\|), blast E-value=0, identity=100%
	486-778, PADT0811001_L13F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB411500.1\|), blast E-value=0, identity=97.61%

	1-1474, gnl\|bosTau2\|chr26 (13409603-13411097)
	1-1474, gnl\|Hg17\|chr10 (102756688-102758215)
	1-1474, gnl\|Mm7\|chr19 (44920131-44921499)

	amn (0.417711)
	nco (0.323468)
	cag (0.302389)
	pla (0.267344)
	cli (0.152812)
	hyp (0.142837)
	nca (0.136874)
	che (0.136314)
	nmm (0.132802)
	eru (0.120048)
	ecc (0.115035)