Non-Coding RNA Search

Ss1.1-rhyp31c_m4.5

Sequence:


               
               CTCCTGGGCAGGCAGGAAATAACCTCATCATCCCGGCTGCCCTTTCTGGGCACCCGGGCC
TCGGACTTAGCAGAGGGAGAATGAGGGGCTCTGCGGCTCCCTCAGGCCAAGATGCAGTGG
CGAGGGGCTGGGAGGGCGAGCTCTGCCCCTCCTCTCTGCCTTAATGCGCAGGCTGGCCCT
GCCCTGGTTTCCTGCCCTGGATGGCAGTGATGGGTGGTGGATGGAAGGGGCTGGGAGGCA
GTCCCCTACCTAAACTGCCCCCTCTGCCCTGCGGGTCACAGGAGGGAGGGGGAAGGCAGG
GTGGGCCCCGGTTGTATTTATTTGGTATTTATTCACTTTTATTTAGCACCAGGGAAGGGG
ATAAGGGCTAGGGTCCTGGAGTACCTGTCCCCCTGCTCTCATAGCCCTCACCCTGGCTAG
GAAATCCAGGGTGGTGGTGATAGTGTGTGTTTGTGTGTGAGAAAATGTGTGTGTGTGTGT
GTGTGTGTGTGTGTGTGTGTGTGTGAGGTTCATCCTGCCCAGCTTTCCTCTCCCTAAATT
TTATCTTTGGGGAAAGGAAGAGTCAAGGGTAGGATGGGCCTTCAGGGAGTAAGGGATTAT
CATATTTTTTAAAATATAAATTCTGCTATTTATGTGCTCCTTTTGGAGTCGGACTGATGT
GGGTTGCACCCTGGCTCCACATCTCTGAACATTAGT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTCCTGGGCAGGCAGGAAATAACCTCATCATCCCGGCTGCCCTTTCTGGGCACCCGGGCC
TCGGACTTAGCAGAGGGAGAATGAGGGGCTCTGCGGCTCCCTCAGGCCAAGATGCAGTGG
CGAGGGGCTGGGAGGGCGAGCTCTGCCCCTCCTCTCTGCCTTAATGCGCAGGCTGGCCCT
GCCCTGGTTTCCTGCCCTGGATGGCAGTGATGGGTGGTGGATGGAAGGGGCTGGGAGGCA
GTCCCCTACCTAAACTGCCCCCTCTGCCCTGCGGGTCACAGGAGGGAGGGGGAAGGCAGG
GTGGGCCCCGGTTGTATTTATTTGGTATTTATTCACTTTTATTTAGCACCAGGGAAGGGG
ATAAGGGCTAGGGTCCTGGAGTACCTGTCCCCCTGCTCTCATAGCCCTCACCCTGGCTAG
GAAATCCAGGGTGGTGGTGATAGTGTGTGTTTGTGTGTGAGAAAATGTGTGTGTGTGTGT
GTGTGTGTGTGTGTGTGTGTGTGTGAGGTTCATCCTGCCCAGCTTTCCTCTCCCTAAATT
TTATCTTTGGGGAAAGGAAGAGTCAAGGGTAGGATGGGCCTTCAGGGAGTAAGGGATTAT
CATATTTTTTAAAATATAAATTCTGCTATTTATGTGCTCCTTTTGGAGTCGGACTGATGT
GGGTTGCACCCTGGCTCCACATCTCTGAACATTAGT

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               209-615, + strand, RNAz p=0.999868

Predicted RNA structure(s): 1 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


               
               209-615, + strand, RNAz p=0.999868

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               533-613, + strand, RNAmicro p=0.999999
               

               
               530-666, - strand, RNAmicro p=0.99936

Predicted microRNA(s): 2 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


               
               533-613, + strand, RNAmicro p=0.999999
               

               
               530-666, - strand, RNAmicro p=0.99936

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               209-442, CR455431 Normalized and Subtracted bovine embryonic and 
(emb|CR455431.2|), blast E-value=0, identity=90.6% 
               

               
               241-613, 92459 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW632491.1|), 
blast E-value=6e-28, identity=90.65% 
               

               
               209-442, 181458 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE683024.1|), 
blast E-value=0, identity=90.6% 
               

               
               209-613, 181459 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE683025.1|), 
blast E-value=3e-23, identity=88.79% 
               

               
               209-613, 963011 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK774268.1|), 
blast E-value=4e-35, identity=93.46% 
               

               
               209-613, BovGen_06764 normal cattle brain Bos taurus cDNA clone 
(gb|CO878439.1|), blast E-value=4e-35, identity=93.46%

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


               
               209-442, CR455431 Normalized and Subtracted bovine embryonic and 
(emb|CR455431.2|), blast E-value=0, identity=90.6% 
               

               
               241-613, 92459 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW632491.1|), 
blast E-value=6e-28, identity=90.65% 
               

               
               209-442, 181458 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE683024.1|), 
blast E-value=0, identity=90.6% 
               

               
               209-613, 181459 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE683025.1|), 
blast E-value=3e-23, identity=88.79% 
               

               
               209-613, 963011 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK774268.1|), 
blast E-value=4e-35, identity=93.46% 
               

               
               209-613, BovGen_06764 normal cattle brain Bos taurus cDNA clone 
(gb|CO878439.1|), blast E-value=4e-35, identity=93.46%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_005099, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_005099, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               209-696, gnl|bosTau2|chr3 (7607268-7607761)
               

               
               209-696, gnl|Hg17|chr1 (157973823-157972696)
               

               
               209-696, gnl|Mm7|chr1 (171229446-171229932)

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


               
               209-696, gnl|bosTau2|chr3 (7607268-7607761)
               

               
               209-696, gnl|Hg17|chr1 (157973823-157972696)
               

               
               209-696, gnl|Mm7|chr1 (171229446-171229932)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               fhi (0.169578)
               

               
               hyp (0.142837)
               

               
               cov (0.132153)
               

               
               eje (0.0988338)

Expressed library(ies): 4 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


               
               fhi (0.169578)
               

               
               hyp (0.142837)
               

               
               cov (0.132153)
               

               
               eje (0.0988338)

	533-613, + strand, RNAmicro p=0.999999
	530-666, - strand, RNAmicro p=0.99936

	209-442, CR455431 Normalized and Subtracted bovine embryonic and (emb\|CR455431.2\|), blast E-value=0, identity=90.6%
	241-613, 92459 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW632491.1\|), blast E-value=6e-28, identity=90.65%
	209-442, 181458 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE683024.1\|), blast E-value=0, identity=90.6%
	209-613, 181459 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE683025.1\|), blast E-value=3e-23, identity=88.79%
	209-613, 963011 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK774268.1\|), blast E-value=4e-35, identity=93.46%
	209-613, BovGen_06764 normal cattle brain Bos taurus cDNA clone (gb\|CO878439.1\|), blast E-value=4e-35, identity=93.46%

	209-696, gnl\|bosTau2\|chr3 (7607268-7607761)
	209-696, gnl\|Hg17\|chr1 (157973823-157972696)
	209-696, gnl\|Mm7\|chr1 (171229446-171229932)