Non-Coding RNA Search

Ss1.1-rlin06_b13.5

Sequence:


               
               GATCTCCCTGCTGACGGAGAACGACCGCCACTACCACATTCCTGTCTTTTAAGTCTGGCT
GGACTGGGCACCAGCTCTCGCCAGTGACAAGAGTCACACCTGCAAGTAGTGTTTCTCGAA
AACCAAAGCTAGCGTTGCTGCCGTTGAAGGAGTCTGGACCTTCCTGTCCGGGATTTCAGG
TACACTGGCCAGAGACCCCGTGGTGGCTGCCCTTTGGCTTCCGTGATTTCCTTCAGAGCG
GCTGCACTAAGGAATCTGTGGGTTGGTGGTCTGCCCTTGTTCCTAAGGGCTCTGGTCATT
TCATACATAACAGGCCTTAAGAACACAAGGATGTTTAATTTGAACAGGAAAAAAAATGAG
AAAAAACAAGTAGGGGAAAAGGACAAAAGGGAAAGAATTTCTTTGATTTATATAGTCTTT
ATATTCTTAAGAATCTTGTCATTGACTGATTTTTGGGATCTTCATAAACATGGTCTTCTT
ATAAGCATTACCTTCCCAGCAGTTTCTATGGTATAATGATTTTCCAGAACCATTTGATTG
ATGTTAATCGTGGGTGTGCATACACTCATATATATATATATACACATATATATAAACATG
TACCTAATCGTGTGTGCGTGTGTGTATACACTCATATATATACATGTACAATTTTATATA
AACGTATCTAAACACATGCACACACATAGCCACTACTTTGTAATGTTGTACAAAATGTTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GATCTCCCTGCTGACGGAGAACGACCGCCACTACCACATTCCTGTCTTTTAAGTCTGGCT
GGACTGGGCACCAGCTCTCGCCAGTGACAAGAGTCACACCTGCAAGTAGTGTTTCTCGAA
AACCAAAGCTAGCGTTGCTGCCGTTGAAGGAGTCTGGACCTTCCTGTCCGGGATTTCAGG
TACACTGGCCAGAGACCCCGTGGTGGCTGCCCTTTGGCTTCCGTGATTTCCTTCAGAGCG
GCTGCACTAAGGAATCTGTGGGTTGGTGGTCTGCCCTTGTTCCTAAGGGCTCTGGTCATT
TCATACATAACAGGCCTTAAGAACACAAGGATGTTTAATTTGAACAGGAAAAAAAATGAG
AAAAAACAAGTAGGGGAAAAGGACAAAAGGGAAAGAATTTCTTTGATTTATATAGTCTTT
ATATTCTTAAGAATCTTGTCATTGACTGATTTTTGGGATCTTCATAAACATGGTCTTCTT
ATAAGCATTACCTTCCCAGCAGTTTCTATGGTATAATGATTTTCCAGAACCATTTGATTG
ATGTTAATCGTGGGTGTGCATACACTCATATATATATATATACACATATATATAAACATG
TACCTAATCGTGTGTGCGTGTGTGTATACACTCATATATATACATGTACAATTTTATATA
AACGTATCTAAACACATGCACACACATAGCCACTACTTTGTAATGTTGTACAAAATGTTT

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

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

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               494-592, + strand, RNAz p=0.994603
               

               
               613-720, + strand, RNAz p=0.99987

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


               
               494-592, + strand, RNAz p=0.994603
               

               
               613-720, + strand, RNAz p=0.99987

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               613-685, + strand, RNAmicro p=0.969603

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


               
               613-685, + strand, RNAmicro p=0.969603

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               639-713, AJ819610 KN206 Bos sp. cDNA clone C0006015p05, mRNA sequence 
(emb|AJ819610.1|), blast E-value=1e-16, identity=90.67% 
               

               
               639-713, PKO602601244.R1 CSEQFXL08 stomach-reticulum Bos taurus cDNA, mRNA 
(gb|CB171489.1|), blast E-value=1e-16, identity=90.67% 
               

               
               639-713, 4085604 BARC 9BOV Bos taurus cDNA clone 9BOV2_H13 5', mRNA sequence 
(gb|CK969842.1|), blast E-value=1e-16, identity=90.67% 
               

               
               639-713, 797811 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CX737074.1|), 
blast E-value=1e-16, identity=90.67% 
               

               
               639-713, UMC-bof_0B02-006-e03 Ovarian follicle recruited bof Bos taurus cDNA 
(gb|CX955102.1|), blast E-value=1e-16, identity=90.67% 
               

               
               639-713, 1604533 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|DY464337.1|), 
blast E-value=1e-16, identity=90.67%

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


               
               639-713, AJ819610 KN206 Bos sp. cDNA clone C0006015p05, mRNA sequence 
(emb|AJ819610.1|), blast E-value=1e-16, identity=90.67% 
               

               
               639-713, PKO602601244.R1 CSEQFXL08 stomach-reticulum Bos taurus cDNA, mRNA 
(gb|CB171489.1|), blast E-value=1e-16, identity=90.67% 
               

               
               639-713, 4085604 BARC 9BOV Bos taurus cDNA clone 9BOV2_H13 5', mRNA sequence 
(gb|CK969842.1|), blast E-value=1e-16, identity=90.67% 
               

               
               639-713, 797811 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CX737074.1|), 
blast E-value=1e-16, identity=90.67% 
               

               
               639-713, UMC-bof_0B02-006-e03 Ovarian follicle recruited bof Bos taurus cDNA 
(gb|CX955102.1|), blast E-value=1e-16, identity=90.67% 
               

               
               639-713, 1604533 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|DY464337.1|), 
blast E-value=1e-16, identity=90.67%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_019018, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_019018, +

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-592, gnl|bosTau2|chr20 (34887356-34887947)
               

               
               1-592, gnl|Hg17|chr5 (14663372-14663993)
               

               
               1-592, gnl|Mm7|chr15 (27760073-27759532)
               


               
               613-720, gnl|bosTau2|chr20 (34887908-34888017)
               

               
               613-720, gnl|Hg17|chr5 (14663942-14664063)
               

               
               613-720, gnl|Mm7|chr15 (27759582-27759472)

Aligned organism(s): 6 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


               
               1-592, gnl|bosTau2|chr20 (34887356-34887947)
               

               
               1-592, gnl|Hg17|chr5 (14663372-14663993)
               

               
               1-592, gnl|Mm7|chr15 (27760073-27759532)
               


               
               613-720, gnl|bosTau2|chr20 (34887908-34888017)
               

               
               613-720, gnl|Hg17|chr5 (14663942-14664063)
               

               
               613-720, gnl|Mm7|chr15 (27759582-27759472)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               lun (0.300978)
               

               
               spl (0.286369)
               

               
               hea (0.204499)
               

               
               lin (0.145603)

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


               
               lun (0.300978)
               

               
               spl (0.286369)
               

               
               hea (0.204499)
               

               
               lin (0.145603)

	494-592, + strand, RNAz p=0.994603
	613-720, + strand, RNAz p=0.99987

	639-713, AJ819610 KN206 Bos sp. cDNA clone C0006015p05, mRNA sequence (emb\|AJ819610.1\|), blast E-value=1e-16, identity=90.67%
	639-713, PKO602601244.R1 CSEQFXL08 stomach-reticulum Bos taurus cDNA, mRNA (gb\|CB171489.1\|), blast E-value=1e-16, identity=90.67%
	639-713, 4085604 BARC 9BOV Bos taurus cDNA clone 9BOV2_H13 5', mRNA sequence (gb\|CK969842.1\|), blast E-value=1e-16, identity=90.67%
	639-713, 797811 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CX737074.1\|), blast E-value=1e-16, identity=90.67%
	639-713, UMC-bof_0B02-006-e03 Ovarian follicle recruited bof Bos taurus cDNA (gb\|CX955102.1\|), blast E-value=1e-16, identity=90.67%
	639-713, 1604533 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb\|DY464337.1\|), blast E-value=1e-16, identity=90.67%

	1-592, gnl\|bosTau2\|chr20 (34887356-34887947)
	1-592, gnl\|Hg17\|chr5 (14663372-14663993)
	1-592, gnl\|Mm7\|chr15 (27760073-27759532)

	613-720, gnl\|bosTau2\|chr20 (34887908-34888017)
	613-720, gnl\|Hg17\|chr5 (14663942-14664063)
	613-720, gnl\|Mm7\|chr15 (27759582-27759472)