Non-Coding RNA Search

Ss1.1-Emb1-C0005191_B04.5

Sequence:


               
               TTTTCCATCTCCAGAACTGCCCCTTATGGAGCTCTCTGAGGATATTTTGAAAGGACTTAT
GAATAATTAAAATGGAAGCCCAGAGAAGAGGTGAAAAGAGGAAATAATAGAGTAATATAG
TTAATCCAGTAAAAATAAAAAAGGGAAAACCACATGCAAGGATAATCCCAGAGATACTCC
ATCATCTGGCGCACGTGGAGACGAGGCATTGCCAGGACTTGGAAACAGTCACTGTGAAAT
GTATCGTGCATCTGATTTACTGACTTGAGTTCATGATTTCGGACTTGGCAGACACTCTGC
TCTCGGAGGTTCACTTTCTCCTGATACAAACCAAATGGCTACCTGGAATAATTTTTTCAA
GCAACAATTATCTTTCCTATCTTCAGGGTCAAAAATGCATAAAAGTATGTTATATGTAAT
TAATCTGTAATGCCATAAATGATAATGTAAAACCTAAATAATATGGTGGCCCGAGGGGCT
GCCTTGTATTTGAAACATGCTTTCTATCATGCATTGAGTATATATGCATCTTGTTATGCA
CATTTTGTTTGTTTAAAAAGGTAAGACACACCTTTCTAGAAGAAACTGTGTGCCACACTT
TGCACTATTCATAACATGATGATAACCTCAAGACTATCAGGAGAAATATTTAAATTTCCA
TTTTATGAAGAAAGGAACCAAATTATTAGTTACGCTTTTTTTAAAAAAATTACCAGTTTA
CATGATTAATCAGGGTGCATTTTAAGTTCTAACTTTTTTTTGTTTATTGTATAATGCATC
ATTTGAAAATACCAAGGGAAATATCCTTTTGTTTTTAATGATGCATGAGTGGAAGTAATG
CTAGTTGGCAGTATTTGATTGTAAAGTCAATAAAGTAATTGTATTTTA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTTCCATCTCCAGAACTGCCCCTTATGGAGCTCTCTGAGGATATTTTGAAAGGACTTAT
GAATAATTAAAATGGAAGCCCAGAGAAGAGGTGAAAAGAGGAAATAATAGAGTAATATAG
TTAATCCAGTAAAAATAAAAAAGGGAAAACCACATGCAAGGATAATCCCAGAGATACTCC
ATCATCTGGCGCACGTGGAGACGAGGCATTGCCAGGACTTGGAAACAGTCACTGTGAAAT
GTATCGTGCATCTGATTTACTGACTTGAGTTCATGATTTCGGACTTGGCAGACACTCTGC
TCTCGGAGGTTCACTTTCTCCTGATACAAACCAAATGGCTACCTGGAATAATTTTTTCAA
GCAACAATTATCTTTCCTATCTTCAGGGTCAAAAATGCATAAAAGTATGTTATATGTAAT
TAATCTGTAATGCCATAAATGATAATGTAAAACCTAAATAATATGGTGGCCCGAGGGGCT
GCCTTGTATTTGAAACATGCTTTCTATCATGCATTGAGTATATATGCATCTTGTTATGCA
CATTTTGTTTGTTTAAAAAGGTAAGACACACCTTTCTAGAAGAAACTGTGTGCCACACTT
TGCACTATTCATAACATGATGATAACCTCAAGACTATCAGGAGAAATATTTAAATTTCCA
TTTTATGAAGAAAGGAACCAAATTATTAGTTACGCTTTTTTTAAAAAAATTACCAGTTTA
CATGATTAATCAGGGTGCATTTTAAGTTCTAACTTTTTTTTGTTTATTGTATAATGCATC
ATTTGAAAATACCAAGGGAAATATCCTTTTGTTTTTAATGATGCATGAGTGGAAGTAATG
CTAGTTGGCAGTATTTGATTGTAAAGTCAATAAAGTAATTGTATTTTA

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

More info

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

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               515-627, - strand, RNAz p=0.71509
               

               
               744-888, - strand, RNAz p=0.912548

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


               
               515-627, - strand, RNAz p=0.71509
               

               
               744-888, - strand, RNAz p=0.912548

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               419-534, + strand, RNAmicro p=0.929814

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


               
               419-534, + strand, RNAmicro p=0.929814

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               762-888, AU310837 human 4S neuroblastoma cDNA Homo sapiens cDNA clone 
(dbj|AU310837.1|), blast E-value=2e-34, identity=91.6% 
               

               
               762-888, DB511881 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB511881.1|), blast E-value=6.02558e-44, identity=94.66% 
               

               
               762-888, DB522359 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB522359.1|), blast E-value=2e-34, identity=91.6% 
               

               
               762-888, UI-H-FH1-bfp-j-04-0-UI.s1 NCI_CGAP_FH1 Homo sapiens cDNA clone 
(gb|CA430004.1|), blast E-value=2e-34, identity=91.6% 
               

               
               762-888, UI-H-DT0-avk-i-16-0-UI.s1 NCI_CGAP_DT0 Homo sapiens cDNA clone 
(gb|CA437468.1|), blast E-value=2e-34, identity=91.6% 
               

               
               762-887, 957623 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769579.1|), 
blast E-value=9.99967e-42, identity=93.75%

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


               
               762-888, AU310837 human 4S neuroblastoma cDNA Homo sapiens cDNA clone 
(dbj|AU310837.1|), blast E-value=2e-34, identity=91.6% 
               

               
               762-888, DB511881 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB511881.1|), blast E-value=6.02558e-44, identity=94.66% 
               

               
               762-888, DB522359 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB522359.1|), blast E-value=2e-34, identity=91.6% 
               

               
               762-888, UI-H-FH1-bfp-j-04-0-UI.s1 NCI_CGAP_FH1 Homo sapiens cDNA clone 
(gb|CA430004.1|), blast E-value=2e-34, identity=91.6% 
               

               
               762-888, UI-H-DT0-avk-i-16-0-UI.s1 NCI_CGAP_DT0 Homo sapiens cDNA clone 
(gb|CA437468.1|), blast E-value=2e-34, identity=91.6% 
               

               
               762-887, 957623 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769579.1|), 
blast E-value=9.99967e-42, identity=93.75%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               1-888, gnl|bosTau2|chr28 (14244473-14245357)
               

               
               1-888, gnl|Hg17|chr10 (64583915-64584790)

Aligned organism(s): 2 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


               
               1-888, gnl|bosTau2|chr28 (14244473-14245357)
               

               
               1-888, gnl|Hg17|chr10 (64583915-64584790)

Expressed library(ies): 8 entry(ies)

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Expressed library(ies): 8 entry(ies)

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               sug (0.254582)
               

               
               mga (0.160205)
               

               
               tbr (0.154178)
               

               
               fat (0.147427)
               

               
               pty (0.142714)
               

               
               csk (0.140746)
               

               
               ste (0.135208)
               

               
               lyg (0.133103)

Expressed library(ies): 8 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


               
               sug (0.254582)
               

               
               mga (0.160205)
               

               
               tbr (0.154178)
               

               
               fat (0.147427)
               

               
               pty (0.142714)
               

               
               csk (0.140746)
               

               
               ste (0.135208)
               

               
               lyg (0.133103)

	515-627, - strand, RNAz p=0.71509
	744-888, - strand, RNAz p=0.912548

	762-888, AU310837 human 4S neuroblastoma cDNA Homo sapiens cDNA clone (dbj\|AU310837.1\|), blast E-value=2e-34, identity=91.6%
	762-888, DB511881 RIKEN full-length enriched human cDNA library, testis Homo (dbj\|DB511881.1\|), blast E-value=6.02558e-44, identity=94.66%
	762-888, DB522359 RIKEN full-length enriched human cDNA library, testis Homo (dbj\|DB522359.1\|), blast E-value=2e-34, identity=91.6%
	762-888, UI-H-FH1-bfp-j-04-0-UI.s1 NCI_CGAP_FH1 Homo sapiens cDNA clone (gb\|CA430004.1\|), blast E-value=2e-34, identity=91.6%
	762-888, UI-H-DT0-avk-i-16-0-UI.s1 NCI_CGAP_DT0 Homo sapiens cDNA clone (gb\|CA437468.1\|), blast E-value=2e-34, identity=91.6%
	762-887, 957623 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK769579.1\|), blast E-value=9.99967e-42, identity=93.75%

	1-888, gnl\|bosTau2\|chr28 (14244473-14245357)
	1-888, gnl\|Hg17\|chr10 (64583915-64584790)

	sug (0.254582)
	mga (0.160205)
	tbr (0.154178)
	fat (0.147427)
	pty (0.142714)
	csk (0.140746)
	ste (0.135208)
	lyg (0.133103)