Non-Coding RNA Search

Ss1.1-Pig4-TMW8067E16.3

Sequence:


               
               CTCTTCTTGGGAAGGGTCACCTGGAGGCTTCTTAGCTCTACCCTGCCCCTTCTGGCCAGG
ATCCCACAGGACAACAGTCCCATCTGCTTGGCTGACCCCATACCCCGGACCACTGTCCAG
CTCTAACTACAGCTATTAAGTGCTACCTGCCTCTCAGGCACTCCCCTCACCCAGTTTCTG
AGGTCATATGAGTGTCTGTGATGTCTTCCTGTGTCTTCCCCCACTTGATTCCCTCAGCCT
CCTTCTGCTTTCATGCTCAGCCTCCTGCTTTCATGCTCTGAACATCGTTGTCCTAGGCCA
CCGCTTCCCCCAAACCTCACCTTTTCTTCCAGTAGAAAACTCTGCTTGATCTTTGGTGCA
CTGCCCACTTCCACACTCCACTGGGCCCAAGCCTGAGCCTGTGGCCCTTGTTTTGGGGGA
CAGGGGTGGCTATGATTGCTCTTGAAGAGCAAGGCTGAATGGAGAGGAACACTGACTCCT
GGGTCCCAGGGGCCTGAGGTAGCCCGGGGTTTGCCCAGGGTAGGCCTGGCATAGCCGTCA
GTGGGGGTGGGGGCAGCCAATGTCACTTCCTCCTCTCGGGGCCCTCTGAGAGTCTATCTC
CCCAAGATAAGAAGGGAAAGGCAAATTTCTAACACACCAGCAATAAAAATCGGAGGAGGC
TTGGCCCTCAGCCCTGGTATTTCTCTCTTTTCACTCTCTCCCTCCCACCCCCAAGACTGG
GTTTGTGGGGCAGGGTGGAGGGAGCTGGCAACTACTGTGAGCAACCCCCGACCCCTGACC
AGCCTCCTCCCATGACTGGTGACTGTTTAACCAGCTGTGCATCCCCCACAAAAACAGGAG
TGCCCCTCTGCGTGGCCTCTGTCCTTCTGCACAGCCCCTTCCGGTGGCCCTCCCCAGATC
TCTGAGCTGGGTGAGGGGCTGTCCTGGCAATCACTGCCCATTCCACTCACCCTTCACTAC
ACCTGCCCCAGAACCTGGGCCTGGGCCAGAGGGGCAGGGGGAAGAGAAGGCATTAGTAGG
AAAAAAAAAAAAAAATAGAAAAAAAAATATGAACAGACTCAGCTTTGGGACTTCCAACCA
CAAAAGAAATTATATATAAATATATAAAAATATATATCTCTACCATATGTGATGGAAAGA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTCTTCTTGGGAAGGGTCACCTGGAGGCTTCTTAGCTCTACCCTGCCCCTTCTGGCCAGG
ATCCCACAGGACAACAGTCCCATCTGCTTGGCTGACCCCATACCCCGGACCACTGTCCAG
CTCTAACTACAGCTATTAAGTGCTACCTGCCTCTCAGGCACTCCCCTCACCCAGTTTCTG
AGGTCATATGAGTGTCTGTGATGTCTTCCTGTGTCTTCCCCCACTTGATTCCCTCAGCCT
CCTTCTGCTTTCATGCTCAGCCTCCTGCTTTCATGCTCTGAACATCGTTGTCCTAGGCCA
CCGCTTCCCCCAAACCTCACCTTTTCTTCCAGTAGAAAACTCTGCTTGATCTTTGGTGCA
CTGCCCACTTCCACACTCCACTGGGCCCAAGCCTGAGCCTGTGGCCCTTGTTTTGGGGGA
CAGGGGTGGCTATGATTGCTCTTGAAGAGCAAGGCTGAATGGAGAGGAACACTGACTCCT
GGGTCCCAGGGGCCTGAGGTAGCCCGGGGTTTGCCCAGGGTAGGCCTGGCATAGCCGTCA
GTGGGGGTGGGGGCAGCCAATGTCACTTCCTCCTCTCGGGGCCCTCTGAGAGTCTATCTC
CCCAAGATAAGAAGGGAAAGGCAAATTTCTAACACACCAGCAATAAAAATCGGAGGAGGC
TTGGCCCTCAGCCCTGGTATTTCTCTCTTTTCACTCTCTCCCTCCCACCCCCAAGACTGG
GTTTGTGGGGCAGGGTGGAGGGAGCTGGCAACTACTGTGAGCAACCCCCGACCCCTGACC
AGCCTCCTCCCATGACTGGTGACTGTTTAACCAGCTGTGCATCCCCCACAAAAACAGGAG
TGCCCCTCTGCGTGGCCTCTGTCCTTCTGCACAGCCCCTTCCGGTGGCCCTCCCCAGATC
TCTGAGCTGGGTGAGGGGCTGTCCTGGCAATCACTGCCCATTCCACTCACCCTTCACTAC
ACCTGCCCCAGAACCTGGGCCTGGGCCAGAGGGGCAGGGGGAAGAGAAGGCATTAGTAGG
AAAAAAAAAAAAAAATAGAAAAAAAAATATGAACAGACTCAGCTTTGGGACTTCCAACCA
CAAAAGAAATTATATATAAATATATAAAAATATATATCTCTACCATATGTGATGGAAAGA

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

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

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               1-235, - strand, RNAz p=0.936986
               

               
               276-458, - strand, RNAz p=0.990163
               

               
               660-1054, - strand, RNAz p=0.999919

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


               
               1-235, - strand, RNAz p=0.936986
               

               
               276-458, - strand, RNAz p=0.990163
               

               
               660-1054, - strand, RNAz p=0.999919

Predicted microRNA(s): 4 entry(ies)

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Predicted microRNA(s): 4 entry(ies)

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               786-916, - strand, RNAmicro p=0.999666
               

               
               832-890, + strand, RNAmicro p=0.987628
               

               
               1018-1143, + strand, RNAmicro p=0.982202
               

               
               407-465, + strand, RNAmicro p=0.93951

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


               
               786-916, - strand, RNAmicro p=0.999666
               

               
               832-890, + strand, RNAmicro p=0.987628
               

               
               1018-1143, + strand, RNAmicro p=0.982202
               

               
               407-465, + strand, RNAmicro p=0.93951

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               661-1018, 694331 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB443433.1|), 
blast E-value=0, identity=90.81% 
               

               
               660-1020, ip30d09.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CK998335.1|), blast E-value=0, identity=90.93% 
               

               
               660-1020, io94d11.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CN000152.1|), blast E-value=0, identity=90.93% 
               

               
               660-1020, io94d11.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CN001670.1|), blast E-value=0, identity=90.93% 
               

               
               661-1018, 1271248 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN526476.1|), 
blast E-value=0, identity=90.81% 
               

               
               660-1020, GL-Cf-5262 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN748470.1|), blast E-value=0, identity=90.93%

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


               
               661-1018, 694331 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB443433.1|), 
blast E-value=0, identity=90.81% 
               

               
               660-1020, ip30d09.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CK998335.1|), blast E-value=0, identity=90.93% 
               

               
               660-1020, io94d11.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CN000152.1|), blast E-value=0, identity=90.93% 
               

               
               660-1020, io94d11.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CN001670.1|), blast E-value=0, identity=90.93% 
               

               
               661-1018, 1271248 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN526476.1|), 
blast E-value=0, identity=90.81% 
               

               
               660-1020, GL-Cf-5262 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN748470.1|), blast E-value=0, identity=90.93%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1140, gnl|bosTau2|chr13 (34542287-34541161)
               

               
               1-1140, gnl|Hg17|chr20 (3092399-3091317)
               

               
               1-1140, gnl|Mm7|chr2 (130374906-130373679)

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


               
               1-1140, gnl|bosTau2|chr13 (34542287-34541161)
               

               
               1-1140, gnl|Hg17|chr20 (3092399-3091317)
               

               
               1-1140, gnl|Mm7|chr2 (130374906-130373679)

Expressed library(ies): 5 entry(ies)

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Expressed library(ies): 5 entry(ies)

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               mcp (0.170648)
               

               
               nmm (0.132802)
               

               
               eep (0.122564)
               

               
               pgl (0.118483)
               

               
               ecc (0.115035)

Expressed library(ies): 5 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


               
               mcp (0.170648)
               

               
               nmm (0.132802)
               

               
               eep (0.122564)
               

               
               pgl (0.118483)
               

               
               ecc (0.115035)

	1-235, - strand, RNAz p=0.936986
	276-458, - strand, RNAz p=0.990163
	660-1054, - strand, RNAz p=0.999919

	786-916, - strand, RNAmicro p=0.999666
	832-890, + strand, RNAmicro p=0.987628
	1018-1143, + strand, RNAmicro p=0.982202
	407-465, + strand, RNAmicro p=0.93951

	661-1018, 694331 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB443433.1\|), blast E-value=0, identity=90.81%
	660-1020, ip30d09.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris (gb\|CK998335.1\|), blast E-value=0, identity=90.93%
	660-1020, io94d11.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris (gb\|CN000152.1\|), blast E-value=0, identity=90.93%
	660-1020, io94d11.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris (gb\|CN001670.1\|), blast E-value=0, identity=90.93%
	661-1018, 1271248 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN526476.1\|), blast E-value=0, identity=90.81%
	660-1020, GL-Cf-5262 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN748470.1\|), blast E-value=0, identity=90.93%

	1-1140, gnl\|bosTau2\|chr13 (34542287-34541161)
	1-1140, gnl\|Hg17\|chr20 (3092399-3091317)
	1-1140, gnl\|Mm7\|chr2 (130374906-130373679)

	mcp (0.170648)
	nmm (0.132802)
	eep (0.122564)
	pgl (0.118483)
	ecc (0.115035)