Non-Coding RNA Search

Ss1.1-Pig3-SRG8014J08.3

Sequence:


               
               TTCCGTGTGCATGTCTGTGTACAACCCCCCTGCCCTCCCCACTCCCCTGGCTAAAGTTTT
CCCAGCCGATTTATCGCCCAGGGATTGAGCTCACATTTCCAGCTGGAGAGGATAACCCTG
GGGCCTCGAGGCTGCTCACCCTGCTGCTTCTCCCCGTGCCTGAGCCATCAGAGCTCTCCT
TCCCCCTCCTTCAGCCTCTGCCTTCATCCTCCAGCCTGGCCAGGCCTGCAGCCCCGAGGG
CGTGGCCTCCACCTATGCAACATCTCCTCTGGCTCCCCTTCCCTCTTTCCTTGGGGGACT
GGGCGGGGCACAGACTGTGGGCACACCCTGGCCCCGGGCCCATCCAGGTTGAGCTTAACT
CTCACATGGAGATGGCTGAGTGGGAAGGGAGAGGAGGCCGGAGGAGGGGAGGCGTGGGCA
GGAGGGAAGAGCTGCCTGCTAGGTCTCCCTGGGCAGCAGTGCCCACCTACCTTGCAGCAC
TGGACCCAGAGTCTGTGCTCCTCGGGGGCCTGGCGGTTGGAGCGTGCCTCTTTCCTGTGA
ATGGACATCTGCAAGGTGCAGGTGGTAAGCTGTGGCCTGAGGCCCCAGTTCTTGGCCAGT
TGGCAACCTGATGTCATGCTCTTGTGTGGGGCAGCCTGGCCACCTCATGGCTCCCAGAAA
GGAGACACTCAGCTCCTCCTGAGATGGACCCCAAGCTCGGAGGAGGAGAGGGAAGGGGAG
GCGCTGTTATTATTTTTGCCTGTATTGACCATTTCTGCCTAGGTCTTCTCACACAGACAG
CCTCACCTCCCACACATGCACAGATGTAGAGAGAAACCAGTTCTTTGGGTTTTTTTTTTC
CCTTGGTAGCTTTATTGATTGCCAGGGAAAATGAAAACCAGAAAATTAATCTCTAAAATT
AAACTTTACACTGAATGTTCTTGTTTCTCGAATTAGAACCTCTGCTAGCAGCTGTGGCTA
TGTACACTCACACACACCCTCACACCTACACGTTTGCACTCCGGAACTGTCAGAGGGTGT
CAGGCACAGACCCGAGGTTGCCCAGACAGGCACACACGTGCAGTGGCTCCCAAGCCCCCT
CTGGTGCTCTGCTCAGCATCTGCCTATTGGCAGGAGTCCCTGGAAAGCAGGCATCCTGAG
GCTGTGGTTGCAGCCTGTGACCCATTCTCTGGACACAAGGGGCTGGAGGTTCTGGGTCCC
TCAGCCCAGGGACGATGGGGCATGGGGTTCAGCCTGAATCCATCAGTCACGTCCTCTCGT
GGCCTCATGTGTAGATGTGACTCCCATGGGTGTGGCCCCAGGGTGGGCAGCCACAGAGTG
ATGGGGCCTCATGGAGGGTGCTTAGAAGGTTCCATGTGGCCTGGGGACAAGGGCTTGTGG
GGTGGGCTGGGCCGGGCCTGGCTGGGGAGAAGACAGGTCTCTGTCAATTGGGTGCATCAC
ACTGTGGCCTTTCTGTCGTGGATTTCCAAGCGCAAAGATTGTATAAATCAAACTGGTGGA
TAATAAAGTTGCGGATGACTCACT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTCCGTGTGCATGTCTGTGTACAACCCCCCTGCCCTCCCCACTCCCCTGGCTAAAGTTTT
CCCAGCCGATTTATCGCCCAGGGATTGAGCTCACATTTCCAGCTGGAGAGGATAACCCTG
GGGCCTCGAGGCTGCTCACCCTGCTGCTTCTCCCCGTGCCTGAGCCATCAGAGCTCTCCT
TCCCCCTCCTTCAGCCTCTGCCTTCATCCTCCAGCCTGGCCAGGCCTGCAGCCCCGAGGG
CGTGGCCTCCACCTATGCAACATCTCCTCTGGCTCCCCTTCCCTCTTTCCTTGGGGGACT
GGGCGGGGCACAGACTGTGGGCACACCCTGGCCCCGGGCCCATCCAGGTTGAGCTTAACT
CTCACATGGAGATGGCTGAGTGGGAAGGGAGAGGAGGCCGGAGGAGGGGAGGCGTGGGCA
GGAGGGAAGAGCTGCCTGCTAGGTCTCCCTGGGCAGCAGTGCCCACCTACCTTGCAGCAC
TGGACCCAGAGTCTGTGCTCCTCGGGGGCCTGGCGGTTGGAGCGTGCCTCTTTCCTGTGA
ATGGACATCTGCAAGGTGCAGGTGGTAAGCTGTGGCCTGAGGCCCCAGTTCTTGGCCAGT
TGGCAACCTGATGTCATGCTCTTGTGTGGGGCAGCCTGGCCACCTCATGGCTCCCAGAAA
GGAGACACTCAGCTCCTCCTGAGATGGACCCCAAGCTCGGAGGAGGAGAGGGAAGGGGAG
GCGCTGTTATTATTTTTGCCTGTATTGACCATTTCTGCCTAGGTCTTCTCACACAGACAG
CCTCACCTCCCACACATGCACAGATGTAGAGAGAAACCAGTTCTTTGGGTTTTTTTTTTC
CCTTGGTAGCTTTATTGATTGCCAGGGAAAATGAAAACCAGAAAATTAATCTCTAAAATT
AAACTTTACACTGAATGTTCTTGTTTCTCGAATTAGAACCTCTGCTAGCAGCTGTGGCTA
TGTACACTCACACACACCCTCACACCTACACGTTTGCACTCCGGAACTGTCAGAGGGTGT
CAGGCACAGACCCGAGGTTGCCCAGACAGGCACACACGTGCAGTGGCTCCCAAGCCCCCT
CTGGTGCTCTGCTCAGCATCTGCCTATTGGCAGGAGTCCCTGGAAAGCAGGCATCCTGAG
GCTGTGGTTGCAGCCTGTGACCCATTCTCTGGACACAAGGGGCTGGAGGTTCTGGGTCCC
TCAGCCCAGGGACGATGGGGCATGGGGTTCAGCCTGAATCCATCAGTCACGTCCTCTCGT
GGCCTCATGTGTAGATGTGACTCCCATGGGTGTGGCCCCAGGGTGGGCAGCCACAGAGTG
ATGGGGCCTCATGGAGGGTGCTTAGAAGGTTCCATGTGGCCTGGGGACAAGGGCTTGTGG
GGTGGGCTGGGCCGGGCCTGGCTGGGGAGAAGACAGGTCTCTGTCAATTGGGTGCATCAC
ACTGTGGCCTTTCTGTCGTGGATTTCCAAGCGCAAAGATTGTATAAATCAAACTGGTGGA
TAATAAAGTTGCGGATGACTCACT

Predicted RNA structure(s): 5 entry(ies)

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Predicted RNA structure(s): 5 entry(ies)

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               80-500, - strand, RNAz p=0.997701
               

               
               540-684, - strand, RNAz p=0.815199
               

               
               789-944, - strand, RNAz p=0.991892
               

               
               1086-1241, - strand, RNAz p=0.860141
               

               
               1321-1436, + strand, RNAz p=0.780138

Predicted RNA structure(s): 5 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


               
               80-500, - strand, RNAz p=0.997701
               

               
               540-684, - strand, RNAz p=0.815199
               

               
               789-944, - strand, RNAz p=0.991892
               

               
               1086-1241, - strand, RNAz p=0.860141
               

               
               1321-1436, + strand, RNAz p=0.780138

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               409-529, - strand, RNAmicro p=0.999961
               

               
               421-487, + strand, RNAmicro p=0.998238
               

               
               1254-1362, + strand, RNAmicro p=0.937572

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


               
               409-529, - strand, RNAmicro p=0.999961
               

               
               421-487, + strand, RNAmicro p=0.998238
               

               
               1254-1362, + strand, RNAmicro p=0.937572

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               840-829, BP168202 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|BP168202.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               842-944, UI-R-AF1-aap-h-06-0-UI.r1 UI-R-AF1 Rattus norvegicus cDNA clone 
(gb|BF543078.1|), blast E-value=8.99999e-40, identity=95.33% 
               

               
               842-944, 1247652 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN511700.1|), 
blast E-value=4.2039e-45, identity=98.06% 
               

               
               842-944, 1248420 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN512380.1|), 
blast E-value=4.2039e-45, identity=98.06% 
               

               
               842-944, 1393403 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN544450.1|), 
blast E-value=5.99994e-41, identity=97.12% 
               

               
               842-944, 1394939 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN545848.1|), 
blast E-value=5.99994e-41, identity=97.12%

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


               
               840-829, BP168202 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|BP168202.1|), blast E-value=0.0000000000007, identity=100% 
               

               
               842-944, UI-R-AF1-aap-h-06-0-UI.r1 UI-R-AF1 Rattus norvegicus cDNA clone 
(gb|BF543078.1|), blast E-value=8.99999e-40, identity=95.33% 
               

               
               842-944, 1247652 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN511700.1|), 
blast E-value=4.2039e-45, identity=98.06% 
               

               
               842-944, 1248420 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN512380.1|), 
blast E-value=4.2039e-45, identity=98.06% 
               

               
               842-944, 1393403 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN544450.1|), 
blast E-value=5.99994e-41, identity=97.12% 
               

               
               842-944, 1394939 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN545848.1|), 
blast E-value=5.99994e-41, identity=97.12%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1524, gnl|bosTau2|chr23 (17527725-17526237)
               

               
               1-1524, gnl|Hg17|chr6 (44353604-44355157)
               

               
               1-1524, gnl|Mm7|chr17 (43672917-43671358)

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


               
               1-1524, gnl|bosTau2|chr23 (17527725-17526237)
               

               
               1-1524, gnl|Hg17|chr6 (44353604-44355157)
               

               
               1-1524, gnl|Mm7|chr17 (43672917-43671358)

Expressed library(ies): 10 entry(ies)

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Expressed library(ies): 10 entry(ies)

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               fcc (0.593354)
               

               
               hyp (0.285673)
               

               
               ebs (0.236602)
               

               
               tes (0.207814)
               

               
               nlu (0.191681)
               

               
               eye (0.170503)
               

               
               nje (0.16592)
               

               
               pla (0.133672)
               

               
               nmm (0.132802)
               

               
               ecc (0.115035)

Expressed library(ies): 10 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


               
               fcc (0.593354)
               

               
               hyp (0.285673)
               

               
               ebs (0.236602)
               

               
               tes (0.207814)
               

               
               nlu (0.191681)
               

               
               eye (0.170503)
               

               
               nje (0.16592)
               

               
               pla (0.133672)
               

               
               nmm (0.132802)
               

               
               ecc (0.115035)

	80-500, - strand, RNAz p=0.997701
	540-684, - strand, RNAz p=0.815199
	789-944, - strand, RNAz p=0.991892
	1086-1241, - strand, RNAz p=0.860141
	1321-1436, + strand, RNAz p=0.780138

	409-529, - strand, RNAmicro p=0.999961
	421-487, + strand, RNAmicro p=0.998238
	1254-1362, + strand, RNAmicro p=0.937572

	840-829, BP168202 full-length enriched swine cDNA library, adult thymus Sus (dbj\|BP168202.1\|), blast E-value=0.0000000000007, identity=100%
	842-944, UI-R-AF1-aap-h-06-0-UI.r1 UI-R-AF1 Rattus norvegicus cDNA clone (gb\|BF543078.1\|), blast E-value=8.99999e-40, identity=95.33%
	842-944, 1247652 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN511700.1\|), blast E-value=4.2039e-45, identity=98.06%
	842-944, 1248420 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN512380.1\|), blast E-value=4.2039e-45, identity=98.06%
	842-944, 1393403 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN544450.1\|), blast E-value=5.99994e-41, identity=97.12%
	842-944, 1394939 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN545848.1\|), blast E-value=5.99994e-41, identity=97.12%

	1-1524, gnl\|bosTau2\|chr23 (17527725-17526237)
	1-1524, gnl\|Hg17\|chr6 (44353604-44355157)
	1-1524, gnl\|Mm7\|chr17 (43672917-43671358)

	fcc (0.593354)
	hyp (0.285673)
	ebs (0.236602)
	tes (0.207814)
	nlu (0.191681)
	eye (0.170503)
	nje (0.16592)
	pla (0.133672)
	nmm (0.132802)
	ecc (0.115035)