Non-Coding RNA Search

Ss1.1-rnep09c_m17.5

Sequence:


               
               TGACACTCTTCCCCGTTTCTTCCTCCCCCCTCCCCCCCAGCTAAAGAGACTTTGAATTTA
GGGGGCCCTTGAGCCTGGAGAGGCCTTAACCCTGTGAGGAAGTGTAGGGGGAACCCTCTC
CCACCCCCATCCCCTTCTGAGAGTGGTCAATGTTTACAAGCCCCTGAGCCCCCCAGCCCA
GGGACTCAGCCCCTTTGCTGTCCTTTCCCAGCCCGTCTTCCTGGGCCCAGCTGCTCTCCC
GCCCTTCCTGGGGTTAGGGTGGGTGCAGGGGTCATTCTGTATCCTGGCGTCAGCCTTGTA
CCCACAGTCTCCCCGCCCCCATGTGACTCCCCTCTCTTCTACCTGCCCCTGTAAATACTC
CCCTTCCCCCAATAAAACTTGGTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TGACACTCTTCCCCGTTTCTTCCTCCCCCCTCCCCCCCAGCTAAAGAGACTTTGAATTTA
GGGGGCCCTTGAGCCTGGAGAGGCCTTAACCCTGTGAGGAAGTGTAGGGGGAACCCTCTC
CCACCCCCATCCCCTTCTGAGAGTGGTCAATGTTTACAAGCCCCTGAGCCCCCCAGCCCA
GGGACTCAGCCCCTTTGCTGTCCTTTCCCAGCCCGTCTTCCTGGGCCCAGCTGCTCTCCC
GCCCTTCCTGGGGTTAGGGTGGGTGCAGGGGTCATTCTGTATCCTGGCGTCAGCCTTGTA
CCCACAGTCTCCCCGCCCCCATGTGACTCCCCTCTCTTCTACCTGCCCCTGTAAATACTC
CCCTTCCCCCAATAAAACTTGGTG

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

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

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               76-228, - strand, RNAz p=0.953479
               

               
               80-337, - strand, RNAz p=0.999941

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


               
               76-228, - strand, RNAz p=0.953479
               

               
               80-337, - strand, RNAz p=0.999941

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               262-332, + strand, RNAmicro p=0.998596

Predicted microRNA(s): 1 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


               
               262-332, + strand, RNAmicro p=0.998596

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               80-327, 466908 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI774707.1|), 
blast E-value=0, identity=93.57% 
               

               
               80-327, 4085046 BARC 9BOV Bos taurus cDNA clone 9BOV2_A07 3', mRNA sequence 
(gb|CK969545.1|), blast E-value=0, identity=92.77% 
               

               
               80-327, 4086824 BARC 9BOV Bos taurus cDNA clone 9BOV3_K09 3', mRNA sequence 
(gb|CK970805.1|), blast E-value=0, identity=93.17% 
               

               
               80-327, BE04013A2H03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN437746.1|), blast E-value=0, identity=93.57% 
               

               
               80-319, BovGen_03918 normal cattle brain Bos taurus cDNA clone (gb|CO875593.1|), 
blast E-value=0, identity=93.36% 
               

               
               80-327, BovGen_20836 normal cattle brain Bos taurus cDNA clone (gb|CO892511.1|), 
blast E-value=0, identity=93.57%

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


               
               80-327, 466908 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI774707.1|), 
blast E-value=0, identity=93.57% 
               

               
               80-327, 4085046 BARC 9BOV Bos taurus cDNA clone 9BOV2_A07 3', mRNA sequence 
(gb|CK969545.1|), blast E-value=0, identity=92.77% 
               

               
               80-327, 4086824 BARC 9BOV Bos taurus cDNA clone 9BOV3_K09 3', mRNA sequence 
(gb|CK970805.1|), blast E-value=0, identity=93.17% 
               

               
               80-327, BE04013A2H03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN437746.1|), blast E-value=0, identity=93.57% 
               

               
               80-319, BovGen_03918 normal cattle brain Bos taurus cDNA clone (gb|CO875593.1|), 
blast E-value=0, identity=93.36% 
               

               
               80-327, BovGen_20836 normal cattle brain Bos taurus cDNA clone (gb|CO892511.1|), 
blast E-value=0, identity=93.57%

Aligned organism(s): 13 entry(ies)

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Aligned organism(s): 13 entry(ies)

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               1-384, gnl|bosTau2|chr25 (32318327-32318704)
               

               
               1-384, gnl|canFam2|chr6 (12038858-12038386)
               

               
               1-384, gnl|echTel1|scaffold_301777 (3114-3570)
               

               
               1-384, gnl|hg17|chr22 (30980383-30980843)
               

               
               1-384, gnl|Hg17|chr7 (99922171-99921792)
               

               
               1-384, gnl|loxAfr1|scaffold_16571 (37381-37841)
               

               
               1-384, gnl|mm7|chr5 (136446199-136445775)
               

               
               1-384, gnl|Mm7|chr5 (136445843-136446188)
               

               
               1-384, gnl|monDom2|scaffold_66 (2530253-2530707)
               

               
               1-384, gnl|oryCun1|scaffold_205825 (33273-32812)
               

               
               1-384, gnl|panTro1|chr23 (31136174-31136634)
               

               
               1-384, gnl|rheMac2|chr10 (76155874-76156332)
               

               
               1-384, gnl|rn3|chr12 (19586672-19586240)

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


               
               1-384, gnl|bosTau2|chr25 (32318327-32318704)
               

               
               1-384, gnl|canFam2|chr6 (12038858-12038386)
               

               
               1-384, gnl|echTel1|scaffold_301777 (3114-3570)
               

               
               1-384, gnl|hg17|chr22 (30980383-30980843)
               

               
               1-384, gnl|Hg17|chr7 (99922171-99921792)
               

               
               1-384, gnl|loxAfr1|scaffold_16571 (37381-37841)
               

               
               1-384, gnl|mm7|chr5 (136446199-136445775)
               

               
               1-384, gnl|Mm7|chr5 (136445843-136446188)
               

               
               1-384, gnl|monDom2|scaffold_66 (2530253-2530707)
               

               
               1-384, gnl|oryCun1|scaffold_205825 (33273-32812)
               

               
               1-384, gnl|panTro1|chr23 (31136174-31136634)
               

               
               1-384, gnl|rheMac2|chr10 (76155874-76156332)
               

               
               1-384, gnl|rn3|chr12 (19586672-19586240)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               nep (0.183925)
               

               
               eye (0.170503)
               

               
               lnt (0.142308)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               nbm (0.0993246)

Expressed library(ies): 6 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


               
               nep (0.183925)
               

               
               eye (0.170503)
               

               
               lnt (0.142308)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               nbm (0.0993246)

	76-228, - strand, RNAz p=0.953479
	80-337, - strand, RNAz p=0.999941

	80-327, 466908 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI774707.1\|), blast E-value=0, identity=93.57%
	80-327, 4085046 BARC 9BOV Bos taurus cDNA clone 9BOV2_A07 3', mRNA sequence (gb\|CK969545.1\|), blast E-value=0, identity=92.77%
	80-327, 4086824 BARC 9BOV Bos taurus cDNA clone 9BOV3_K09 3', mRNA sequence (gb\|CK970805.1\|), blast E-value=0, identity=93.17%
	80-327, BE04013A2H03 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN437746.1\|), blast E-value=0, identity=93.57%
	80-319, BovGen_03918 normal cattle brain Bos taurus cDNA clone (gb\|CO875593.1\|), blast E-value=0, identity=93.36%
	80-327, BovGen_20836 normal cattle brain Bos taurus cDNA clone (gb\|CO892511.1\|), blast E-value=0, identity=93.57%

	1-384, gnl\|bosTau2\|chr25 (32318327-32318704)
	1-384, gnl\|canFam2\|chr6 (12038858-12038386)
	1-384, gnl\|echTel1\|scaffold_301777 (3114-3570)
	1-384, gnl\|hg17\|chr22 (30980383-30980843)
	1-384, gnl\|Hg17\|chr7 (99922171-99921792)
	1-384, gnl\|loxAfr1\|scaffold_16571 (37381-37841)
	1-384, gnl\|mm7\|chr5 (136446199-136445775)
	1-384, gnl\|Mm7\|chr5 (136445843-136446188)
	1-384, gnl\|monDom2\|scaffold_66 (2530253-2530707)
	1-384, gnl\|oryCun1\|scaffold_205825 (33273-32812)
	1-384, gnl\|panTro1\|chr23 (31136174-31136634)
	1-384, gnl\|rheMac2\|chr10 (76155874-76156332)
	1-384, gnl\|rn3\|chr12 (19586672-19586240)

	nep (0.183925)
	eye (0.170503)
	lnt (0.142308)
	med (0.116252)
	ecc (0.115035)
	nbm (0.0993246)