Non-Coding RNA Search

Ss1.1-Mixn-0012n15.5

Sequence:


               
               GATGGCTCTCAGCGACCTTGGGCTCTACGTGCAGCTGCATCCACGTACATTGTTTCCAAG
CTTATCAGAAACTCAGTACACTTTAAAGACATCTCGGGTTGGGGTTGGGGGGCAGCGCAG
ATGGGAGAGGAGAAGTGACCCGTACGGAAAGCTTCGCGAGGCTGTGTCGATGGGCTGCGG
CTGAAATGAGGGCGAGTCTCCGTCGTAAATGGTGGCTGAGCGCCCTCTCACTATATATGT
GTTTGTTGGGATGGCTGTCCCGTATTTTGTATATTGGAGTAAAAAGTTCTATAAATTATC
GTAACTGAAAGTAAATATTCTAAATTAAGTCTCACTTCTAAGTCGCATGGCTTCTGTCTT
GGCACTCTTCCCTTGAGAAGCTTGCTCAAGACGGGAGCCATGCAACTGGGCAGAGGGGAG
TGTGTAATATATGGGTCCCTGTGCCTCTAACCCTCCGTGTGGGGTGTTTTCTTTCCTTGA
TGGCAGGAGAATGACCTCCCTTCCATTACATATTACTCTTGATCCTTTCTTTAGAAATAC
TTCTCATTAAAGATCTCTCGTGAGGTATTTACCTGGGAGCCCTCAGGTCCTGGCTCTTCA
GTGAATTTAGCTGTGTGACCTTGGGCAGGTCACCTAACCTCTCTGTGCTTCACTCTCCCT
ATCTTGTAAAATGGGAGTGATACCTACCTCACAGGGTTGTTGTGGGGATTAATTAGATAT
AATGTCTGTAAAGCATCTAAGGTTCTTGAAGAAGGCGCTAGAGAAATATAAAATAATATC
TATTAAAGTTGGTTTATTTGTGAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GATGGCTCTCAGCGACCTTGGGCTCTACGTGCAGCTGCATCCACGTACATTGTTTCCAAG
CTTATCAGAAACTCAGTACACTTTAAAGACATCTCGGGTTGGGGTTGGGGGGCAGCGCAG
ATGGGAGAGGAGAAGTGACCCGTACGGAAAGCTTCGCGAGGCTGTGTCGATGGGCTGCGG
CTGAAATGAGGGCGAGTCTCCGTCGTAAATGGTGGCTGAGCGCCCTCTCACTATATATGT
GTTTGTTGGGATGGCTGTCCCGTATTTTGTATATTGGAGTAAAAAGTTCTATAAATTATC
GTAACTGAAAGTAAATATTCTAAATTAAGTCTCACTTCTAAGTCGCATGGCTTCTGTCTT
GGCACTCTTCCCTTGAGAAGCTTGCTCAAGACGGGAGCCATGCAACTGGGCAGAGGGGAG
TGTGTAATATATGGGTCCCTGTGCCTCTAACCCTCCGTGTGGGGTGTTTTCTTTCCTTGA
TGGCAGGAGAATGACCTCCCTTCCATTACATATTACTCTTGATCCTTTCTTTAGAAATAC
TTCTCATTAAAGATCTCTCGTGAGGTATTTACCTGGGAGCCCTCAGGTCCTGGCTCTTCA
GTGAATTTAGCTGTGTGACCTTGGGCAGGTCACCTAACCTCTCTGTGCTTCACTCTCCCT
ATCTTGTAAAATGGGAGTGATACCTACCTCACAGGGTTGTTGTGGGGATTAATTAGATAT
AATGTCTGTAAAGCATCTAAGGTTCTTGAAGAAGGCGCTAGAGAAATATAAAATAATATC
TATTAAAGTTGGTTTATTTGTGAA

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

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

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               289-436, - strand, RNAz p=0.999974
               

               
               514-615, + strand, RNAz p=0.554647

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


               
               289-436, - strand, RNAz p=0.999974
               

               
               514-615, + strand, RNAz p=0.554647

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               361-452, + strand, RNAmicro p=1

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


               
               361-452, + strand, RNAmicro p=1

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               289-364, AM034242 KN-252-spleen, Bos indicus Bos indicus cDNA clone 
(emb|AM034242.1|), blast E-value=2e-19, identity=92.11% 
               

               
               289-364, CR451775 Normalized and Subtracted bovine embryonic and 
(emb|CR451775.2|), blast E-value=2e-19, identity=92.11% 
               

               
               289-362, LIB4003-025-Q1-K1-H6 LIB4003 Canis familiaris cDNA clone 
(gb|DN399533.1|), blast E-value=2e-25, identity=95.95% 
               

               
               289-364, 1260167 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN519343.1|), 
blast E-value=2e-19, identity=92.11% 
               

               
               289-364, 1265043 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN522090.1|), 
blast E-value=2e-19, identity=92.11% 
               

               
               289-364, 1592540 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY460461.1|), 
blast E-value=2e-19, identity=92.11%

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


               
               289-364, AM034242 KN-252-spleen, Bos indicus Bos indicus cDNA clone 
(emb|AM034242.1|), blast E-value=2e-19, identity=92.11% 
               

               
               289-364, CR451775 Normalized and Subtracted bovine embryonic and 
(emb|CR451775.2|), blast E-value=2e-19, identity=92.11% 
               

               
               289-362, LIB4003-025-Q1-K1-H6 LIB4003 Canis familiaris cDNA clone 
(gb|DN399533.1|), blast E-value=2e-25, identity=95.95% 
               

               
               289-364, 1260167 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN519343.1|), 
blast E-value=2e-19, identity=92.11% 
               

               
               289-364, 1265043 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN522090.1|), 
blast E-value=2e-19, identity=92.11% 
               

               
               289-364, 1592540 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY460461.1|), 
blast E-value=2e-19, identity=92.11%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-802, gnl|bosTau2|chr12 (18320370-18321206)
               

               
               1-802, gnl|Hg17|chr13 (26539130-26538293)
               

               
               1-802, gnl|Mm7|chr5 (145630055-145629228)

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


               
               1-802, gnl|bosTau2|chr12 (18320370-18321206)
               

               
               1-802, gnl|Hg17|chr13 (26539130-26538293)
               

               
               1-802, gnl|Mm7|chr5 (145630055-145629228)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               fcc (0.197785)
               

               
               cut (0.169924)
               

               
               fhi (0.169578)
               

               
               cst (0.140036)
               

               
               eru (0.120048)
               

               
               ldo (0.0970026)

Expressed library(ies): 6 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 (0.197785)
               

               
               cut (0.169924)
               

               
               fhi (0.169578)
               

               
               cst (0.140036)
               

               
               eru (0.120048)
               

               
               ldo (0.0970026)

	289-436, - strand, RNAz p=0.999974
	514-615, + strand, RNAz p=0.554647

	289-364, AM034242 KN-252-spleen, Bos indicus Bos indicus cDNA clone (emb\|AM034242.1\|), blast E-value=2e-19, identity=92.11%
	289-364, CR451775 Normalized and Subtracted bovine embryonic and (emb\|CR451775.2\|), blast E-value=2e-19, identity=92.11%
	289-362, LIB4003-025-Q1-K1-H6 LIB4003 Canis familiaris cDNA clone (gb\|DN399533.1\|), blast E-value=2e-25, identity=95.95%
	289-364, 1260167 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN519343.1\|), blast E-value=2e-19, identity=92.11%
	289-364, 1265043 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN522090.1\|), blast E-value=2e-19, identity=92.11%
	289-364, 1592540 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY460461.1\|), blast E-value=2e-19, identity=92.11%

	1-802, gnl\|bosTau2\|chr12 (18320370-18321206)
	1-802, gnl\|Hg17\|chr13 (26539130-26538293)
	1-802, gnl\|Mm7\|chr5 (145630055-145629228)

	fcc (0.197785)
	cut (0.169924)
	fhi (0.169578)
	cst (0.140036)
	eru (0.120048)
	ldo (0.0970026)