Non-Coding RNA Search

Ss1.1-Pig2-124K20.5

Sequence:


               
               GAGACCCGCATGTTGCTTGGTCTGCTCAGATTGGAGTCGCGTTTCAGTGTCTTTTCCGCC
CCCTTCAGCCCAGCCCTTCAAGGCCTCGTGTCTCCTAAGCATGCTGACTGCATCTGAAAG
CTCCCCCGCCCCACGTACGTGTGCAAGCCTGTGTGTGTGGGCGCCCTCAGACATGCAAGT
GCGCGTGAAAGGAGGCAGCTCCGTGTAAATGCACTTTCTTCCTCCCCTCCTGTCTCCGCA
GGCCCCCCAGGCTGAGGTGTCTCCACCTCGCCTCTCTTTGTCACTTTGGTTTCCTATAAA
TATGTATGTATTGTATGTTCATCTTTGCTCTTGTAAATAACTTGGACCTTTTTTGTTTCT
GATCCTGGCGTGCCGGAGGCAGTAACAGAGGGACCGCTAGGGAAGAGGAGATCCACTTGG
GTCTCCTAGTTAGCAGCCCAGCTCCAGGTTCAGGGCCCAGCAGTGCAGCCAGCCCTGAGC
ACGTCCCGGTCCCCTGCGGGCGAGAAGGCCTCCAGCTTCCGGGCCTCCTGGCCCGAGAGC
CCAGCCTCTGCGGCCGGTGCTGAGCTACTCCCCCCACCCCACCCCATCCCAAGACTTCCC
ATCTTCAGGGGAACTTCCTACCCCACCTGTGTCCACCCTTCCCCACCCTCTCCCTAGAGA
AAACCAGTGTATCAGGTACGGAGCTGAAAACTGGGCCCCAGGAGGTGGGAGAAGGGGGTT
GAATGCTGGAGTCCCCAAACTAACCTAGGACCATCCCAGGGGCCGCCGCAGCCTTGGCCC
CTATTACCACGTCCACTCCACTCCCCAGTGACTAATAGAATATACACACTGTGCTAGGTG
TATATATACATATATATATATAAATATATATATAATATATAAAATATAGATATGGAAATG
ACTGTTTTGCTGTTAAAATAATGTATACTCTTTTATTTTCTTCCTTTCATGGTTAAGATT
TTTTTTTAAGAAAAGTTAAATATT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGACCCGCATGTTGCTTGGTCTGCTCAGATTGGAGTCGCGTTTCAGTGTCTTTTCCGCC
CCCTTCAGCCCAGCCCTTCAAGGCCTCGTGTCTCCTAAGCATGCTGACTGCATCTGAAAG
CTCCCCCGCCCCACGTACGTGTGCAAGCCTGTGTGTGTGGGCGCCCTCAGACATGCAAGT
GCGCGTGAAAGGAGGCAGCTCCGTGTAAATGCACTTTCTTCCTCCCCTCCTGTCTCCGCA
GGCCCCCCAGGCTGAGGTGTCTCCACCTCGCCTCTCTTTGTCACTTTGGTTTCCTATAAA
TATGTATGTATTGTATGTTCATCTTTGCTCTTGTAAATAACTTGGACCTTTTTTGTTTCT
GATCCTGGCGTGCCGGAGGCAGTAACAGAGGGACCGCTAGGGAAGAGGAGATCCACTTGG
GTCTCCTAGTTAGCAGCCCAGCTCCAGGTTCAGGGCCCAGCAGTGCAGCCAGCCCTGAGC
ACGTCCCGGTCCCCTGCGGGCGAGAAGGCCTCCAGCTTCCGGGCCTCCTGGCCCGAGAGC
CCAGCCTCTGCGGCCGGTGCTGAGCTACTCCCCCCACCCCACCCCATCCCAAGACTTCCC
ATCTTCAGGGGAACTTCCTACCCCACCTGTGTCCACCCTTCCCCACCCTCTCCCTAGAGA
AAACCAGTGTATCAGGTACGGAGCTGAAAACTGGGCCCCAGGAGGTGGGAGAAGGGGGTT
GAATGCTGGAGTCCCCAAACTAACCTAGGACCATCCCAGGGGCCGCCGCAGCCTTGGCCC
CTATTACCACGTCCACTCCACTCCCCAGTGACTAATAGAATATACACACTGTGCTAGGTG
TATATATACATATATATATATAAATATATATATAATATATAAAATATAGATATGGAAATG
ACTGTTTTGCTGTTAAAATAATGTATACTCTTTTATTTTCTTCCTTTCATGGTTAAGATT
TTTTTTTAAGAAAAGTTAAATATT

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               320-432, - strand, RNAz p=0.814766
               

               
               334-479, + strand, RNAz p=0.982642
               

               
               756-911, - strand, RNAz p=0.999529

Predicted RNA structure(s): 3 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


               
               320-432, - strand, RNAz p=0.814766
               

               
               334-479, + strand, RNAz p=0.982642
               

               
               756-911, - strand, RNAz p=0.999529

Similar Transcript(s): 3 entry(ies)

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Similar Transcript(s): 3 entry(ies)

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               756-840, CR452674 Normalized and Subtracted bovine embryonic and 
(emb|CR452674.2|), blast E-value=0.000000000003, identity=87.06% 
               

               
               756-840, 1373041 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN536900.1|), 
blast E-value=0.000000000003, identity=87.06% 
               

               
               756-840, 000207BCXB005401HT BCXB Bos taurus cDNA, mRNA sequence 
(gb|DY056692.1|), blast E-value=0.000000000003, identity=87.06%

Similar Transcript(s): 3 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


               
               756-840, CR452674 Normalized and Subtracted bovine embryonic and 
(emb|CR452674.2|), blast E-value=0.000000000003, identity=87.06% 
               

               
               756-840, 1373041 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN536900.1|), 
blast E-value=0.000000000003, identity=87.06% 
               

               
               756-840, 000207BCXB005401HT BCXB Bos taurus cDNA, mRNA sequence 
(gb|DY056692.1|), blast E-value=0.000000000003, identity=87.06%

Homologous human UTR: 2 entry(ies)

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Homologous human UTR: 2 entry(ies)

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               5' of NM_014784, -
               

               
               5' of NM_014784, +

Homologous human UTR: 2 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_014784, -
               

               
               5' of NM_014784, +

Aligned organism(s): 16 entry(ies)

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Aligned organism(s): 16 entry(ies)

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               1-479, gnl|bosTau2|chr3 (9955760-9955274)
               

               
               1-479, gnl|canFam2|chr7 (44066721-44066324)
               

               
               1-479, gnl|dasNov1|scaffold_5842 (7917-8411)
               

               
               1-479, gnl|echTel1|scaffold_308694 (89340-89776)
               

               
               1-479, gnl|hg17|chr1 (153718048-153718592)
               

               
               1-479, gnl|Hg17|chr1 (153718720-153718222)
               

               
               1-479, gnl|mm7|chr3 (87851517-87851119)
               

               
               1-479, gnl|Mm7|chr3 (87850990-87851400)
               

               
               1-479, gnl|monDom2|scaffold_59 (309830-309259)
               

               
               1-479, gnl|oryCun1|scaffold_199691 (196299-196795)
               

               
               1-479, gnl|panTro1|chr1 (135683889-135684433)
               

               
               1-479, gnl|rheMac2|chr1 (135545651-135546186)
               

               
               1-479, gnl|rn3|chr2 (179747525-179747106)
               


               
               577-967, gnl|bosTau2|chr3 (9955236-9954848)
               

               
               577-967, gnl|Hg17|chr1 (153718134-153717738)
               

               
               577-967, gnl|Mm7|chr3 (87851436-87851808)

Aligned organism(s): 16 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


               
               1-479, gnl|bosTau2|chr3 (9955760-9955274)
               

               
               1-479, gnl|canFam2|chr7 (44066721-44066324)
               

               
               1-479, gnl|dasNov1|scaffold_5842 (7917-8411)
               

               
               1-479, gnl|echTel1|scaffold_308694 (89340-89776)
               

               
               1-479, gnl|hg17|chr1 (153718048-153718592)
               

               
               1-479, gnl|Hg17|chr1 (153718720-153718222)
               

               
               1-479, gnl|mm7|chr3 (87851517-87851119)
               

               
               1-479, gnl|Mm7|chr3 (87850990-87851400)
               

               
               1-479, gnl|monDom2|scaffold_59 (309830-309259)
               

               
               1-479, gnl|oryCun1|scaffold_199691 (196299-196795)
               

               
               1-479, gnl|panTro1|chr1 (135683889-135684433)
               

               
               1-479, gnl|rheMac2|chr1 (135545651-135546186)
               

               
               1-479, gnl|rn3|chr2 (179747525-179747106)
               


               
               577-967, gnl|bosTau2|chr3 (9955236-9954848)
               

               
               577-967, gnl|Hg17|chr1 (153718134-153717738)
               

               
               577-967, gnl|Mm7|chr3 (87851436-87851808)

Expressed library(ies): 8 entry(ies)

More info

Expressed library(ies): 8 entry(ies)

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               nco (0.323468)
               

               
               mcp (0.170648)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)
               

               
               cov (0.132153)
               

               
               kid (0.129735)
               

               
               cly (0.120642)
               

               
               jca (0.11396)

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


               
               nco (0.323468)
               

               
               mcp (0.170648)
               

               
               hyp (0.142837)
               

               
               pty (0.142714)
               

               
               cov (0.132153)
               

               
               kid (0.129735)
               

               
               cly (0.120642)
               

               
               jca (0.11396)

	320-432, - strand, RNAz p=0.814766
	334-479, + strand, RNAz p=0.982642
	756-911, - strand, RNAz p=0.999529

	756-840, CR452674 Normalized and Subtracted bovine embryonic and (emb\|CR452674.2\|), blast E-value=0.000000000003, identity=87.06%
	756-840, 1373041 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN536900.1\|), blast E-value=0.000000000003, identity=87.06%
	756-840, 000207BCXB005401HT BCXB Bos taurus cDNA, mRNA sequence (gb\|DY056692.1\|), blast E-value=0.000000000003, identity=87.06%

	1-479, gnl\|bosTau2\|chr3 (9955760-9955274)
	1-479, gnl\|canFam2\|chr7 (44066721-44066324)
	1-479, gnl\|dasNov1\|scaffold_5842 (7917-8411)
	1-479, gnl\|echTel1\|scaffold_308694 (89340-89776)
	1-479, gnl\|hg17\|chr1 (153718048-153718592)
	1-479, gnl\|Hg17\|chr1 (153718720-153718222)
	1-479, gnl\|mm7\|chr3 (87851517-87851119)
	1-479, gnl\|Mm7\|chr3 (87850990-87851400)
	1-479, gnl\|monDom2\|scaffold_59 (309830-309259)
	1-479, gnl\|oryCun1\|scaffold_199691 (196299-196795)
	1-479, gnl\|panTro1\|chr1 (135683889-135684433)
	1-479, gnl\|rheMac2\|chr1 (135545651-135546186)
	1-479, gnl\|rn3\|chr2 (179747525-179747106)

	577-967, gnl\|bosTau2\|chr3 (9955236-9954848)
	577-967, gnl\|Hg17\|chr1 (153718134-153717738)
	577-967, gnl\|Mm7\|chr3 (87851436-87851808)

	nco (0.323468)
	mcp (0.170648)
	hyp (0.142837)
	pty (0.142714)
	cov (0.132153)
	kid (0.129735)
	cly (0.120642)
	jca (0.11396)