Non-Coding RNA Search

Ss1.1-Pig4-TMW8025P20.5

Sequence:


               
               CCCTCACCTCCTTTTGAGATGTAAGTTTCATTCCAAAATTCACTCCTTCATTCATTTTCT
TCCCTACCTTCACCCCCCTGGCTCTCCTGAAGCCCAGGGCCCCATCCTACCCTTTACTTG
CCCCAAGGACTGTGTGTTTGGTGCCTGTTCCTCTGGCACTGAGAAGAAAGGGACCTTGAA
TACCCCTGCCTCAACTCTAGGCCACCTGGTGTTTCCATCCCCTGCACCACCTAGCCTGTC
CCTTTAGCTCTTTTCTCTCTGACCTTCCCTCCCCTCTATCAGGTGGCCCAGCTCCATACT
CTGTCCTCCCAGCTAACACCCAGATCAGTCAGATCACACTCTCCTTCAGGGTTTATTTAG
GTTGTTATTTTTTATTTTTTAATCCTTGCTTCTTCGTTCATTTTTTTTATCTGTGCCCAT
GCTCCACCCTCCTCCCATGACTGAGTACCAATGACGTCATGTAGCTTTGGCAATTCCTCA
CCCCCTCATTAAATCCTTAATGGAGAGCCAGCCCAAGCAGAGGGGGCCCTGATCCTCAAA
CCTCAGCTACAAGAATGGTGCCCCTTGACCACTCTGAAGCACTGTTCTGGGATTCAAGGT
CACAGGAATGGAGAGAGAATGTGAGAGACAAGGAATCCTCATAGGTTGGGGTGTTGAGGA
GGGGGCAAATGAGCCTTAAGAAATAGCTTTTAAATAACCAAAGAAAAAGCCGGAAAAACA
AATGGGAAAAAAGGGGAAAGGGAAGAGGCTGCACTCCCAGCCATAGGGGATTCTTAGGAT
TTTTCTACATTCTGTATATTTCTTCTCAAACCCCCAAATATCCTTACATGTTTAATAAAC
ACTGACATTTCCAGAAAAAAAAAAATCTCCAATTTC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCCTCACCTCCTTTTGAGATGTAAGTTTCATTCCAAAATTCACTCCTTCATTCATTTTCT
TCCCTACCTTCACCCCCCTGGCTCTCCTGAAGCCCAGGGCCCCATCCTACCCTTTACTTG
CCCCAAGGACTGTGTGTTTGGTGCCTGTTCCTCTGGCACTGAGAAGAAAGGGACCTTGAA
TACCCCTGCCTCAACTCTAGGCCACCTGGTGTTTCCATCCCCTGCACCACCTAGCCTGTC
CCTTTAGCTCTTTTCTCTCTGACCTTCCCTCCCCTCTATCAGGTGGCCCAGCTCCATACT
CTGTCCTCCCAGCTAACACCCAGATCAGTCAGATCACACTCTCCTTCAGGGTTTATTTAG
GTTGTTATTTTTTATTTTTTAATCCTTGCTTCTTCGTTCATTTTTTTTATCTGTGCCCAT
GCTCCACCCTCCTCCCATGACTGAGTACCAATGACGTCATGTAGCTTTGGCAATTCCTCA
CCCCCTCATTAAATCCTTAATGGAGAGCCAGCCCAAGCAGAGGGGGCCCTGATCCTCAAA
CCTCAGCTACAAGAATGGTGCCCCTTGACCACTCTGAAGCACTGTTCTGGGATTCAAGGT
CACAGGAATGGAGAGAGAATGTGAGAGACAAGGAATCCTCATAGGTTGGGGTGTTGAGGA
GGGGGCAAATGAGCCTTAAGAAATAGCTTTTAAATAACCAAAGAAAAAGCCGGAAAAACA
AATGGGAAAAAAGGGGAAAGGGAAGAGGCTGCACTCCCAGCCATAGGGGATTCTTAGGAT
TTTTCTACATTCTGTATATTTCTTCTCAAACCCCCAAATATCCTTACATGTTTAATAAAC
ACTGACATTTCCAGAAAAAAAAAAATCTCCAATTTC

Predicted RNA structure(s): 4 entry(ies)

More info

Predicted RNA structure(s): 4 entry(ies)

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               39-154, - strand, RNAz p=0.990776
               

               
               194-306, - strand, RNAz p=0.998675
               

               
               308-412, - strand, RNAz p=0.906182
               

               
               712-856, - strand, RNAz p=0.998702

Predicted RNA structure(s): 4 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


               
               39-154, - strand, RNAz p=0.990776
               

               
               194-306, - strand, RNAz p=0.998675
               

               
               308-412, - strand, RNAz p=0.906182
               

               
               712-856, - strand, RNAz p=0.998702

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               714-854, 109171 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW656750.1|), 
blast E-value=0, identity=93.66% 
               

               
               714-856, 483853 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI975462.1|), 
blast E-value=0, identity=93.75% 
               

               
               714-854, 4001760 BARC 5BOV Bos taurus cDNA clone 5BOV_83F15 3', mRNA 
(gb|CA035628.1|), blast E-value=0, identity=93.66% 
               

               
               714-854, 960445 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK772019.1|), 
blast E-value=0, identity=93.66% 
               

               
               714-856, BovGen_07222 normal cattle brain Bos taurus cDNA clone 
(gb|CO878897.1|), blast E-value=0, identity=93.75% 
               

               
               714-856, BovGen_10462 normal cattle brain Bos taurus cDNA clone 
(gb|CO882137.1|), blast E-value=0, 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


               
               714-854, 109171 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW656750.1|), 
blast E-value=0, identity=93.66% 
               

               
               714-856, 483853 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI975462.1|), 
blast E-value=0, identity=93.75% 
               

               
               714-854, 4001760 BARC 5BOV Bos taurus cDNA clone 5BOV_83F15 3', mRNA 
(gb|CA035628.1|), blast E-value=0, identity=93.66% 
               

               
               714-854, 960445 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK772019.1|), 
blast E-value=0, identity=93.66% 
               

               
               714-856, BovGen_07222 normal cattle brain Bos taurus cDNA clone 
(gb|CO878897.1|), blast E-value=0, identity=93.75% 
               

               
               714-856, BovGen_10462 normal cattle brain Bos taurus cDNA clone 
(gb|CO882137.1|), blast E-value=0, identity=93.75%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               1-856, gnl|bosTau2|chr3 (19410886-19411743)
               

               
               1-856, gnl|canFam2|chr38 (24210104-24209382)
               

               
               1-856, gnl|dasNov1|scaffold_7155 (58346-57610)
               

               
               1-856, gnl|echTel1|scaffold_320165 (32243-32969)
               

               
               1-856, gnl|hg17|chr1 (158087525-158088225)
               

               
               1-856, gnl|Hg17|chr1 (158088446-158087598)
               

               
               1-856, gnl|loxAfr1|scaffold_22919 (18965-18229)
               

               
               1-856, gnl|mm7|chr1 (171131306-171130642)
               

               
               1-856, gnl|Mm7|chr1 (171130420-171131218)
               

               
               1-856, gnl|monDom2|scaffold_0 (28478190-28477473)
               

               
               1-856, gnl|oryCun1|scaffold_122230 (27-764)
               

               
               1-856, gnl|panTro1|chr1 (140154250-140154960)
               

               
               1-856, gnl|rheMac2|chr1 (139918906-139919606)
               

               
               1-856, gnl|rn3|chr13 (87235168-87234517)

Aligned organism(s): 14 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


               
               1-856, gnl|bosTau2|chr3 (19410886-19411743)
               

               
               1-856, gnl|canFam2|chr38 (24210104-24209382)
               

               
               1-856, gnl|dasNov1|scaffold_7155 (58346-57610)
               

               
               1-856, gnl|echTel1|scaffold_320165 (32243-32969)
               

               
               1-856, gnl|hg17|chr1 (158087525-158088225)
               

               
               1-856, gnl|Hg17|chr1 (158088446-158087598)
               

               
               1-856, gnl|loxAfr1|scaffold_22919 (18965-18229)
               

               
               1-856, gnl|mm7|chr1 (171131306-171130642)
               

               
               1-856, gnl|Mm7|chr1 (171130420-171131218)
               

               
               1-856, gnl|monDom2|scaffold_0 (28478190-28477473)
               

               
               1-856, gnl|oryCun1|scaffold_122230 (27-764)
               

               
               1-856, gnl|panTro1|chr1 (140154250-140154960)
               

               
               1-856, gnl|rheMac2|chr1 (139918906-139919606)
               

               
               1-856, gnl|rn3|chr13 (87235168-87234517)

Expressed library(ies): 11 entry(ies)

More info

Expressed library(ies): 11 entry(ies)

Help | Less info


               
               pro (0.512033)
               

               
               sme (0.305437)
               

               
               cst (0.280073)
               

               
               gul (0.177588)
               

               
               eye (0.170503)
               

               
               tbr (0.154178)
               

               
               fat (0.147427)
               

               
               ste (0.135208)
               

               
               sug (0.127291)
               

               
               eep (0.122564)
               

               
               jca (0.11396)

Expressed library(ies): 11 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


               
               pro (0.512033)
               

               
               sme (0.305437)
               

               
               cst (0.280073)
               

               
               gul (0.177588)
               

               
               eye (0.170503)
               

               
               tbr (0.154178)
               

               
               fat (0.147427)
               

               
               ste (0.135208)
               

               
               sug (0.127291)
               

               
               eep (0.122564)
               

               
               jca (0.11396)

	39-154, - strand, RNAz p=0.990776
	194-306, - strand, RNAz p=0.998675
	308-412, - strand, RNAz p=0.906182
	712-856, - strand, RNAz p=0.998702

	714-854, 109171 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW656750.1\|), blast E-value=0, identity=93.66%
	714-856, 483853 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI975462.1\|), blast E-value=0, identity=93.75%
	714-854, 4001760 BARC 5BOV Bos taurus cDNA clone 5BOV_83F15 3', mRNA (gb\|CA035628.1\|), blast E-value=0, identity=93.66%
	714-854, 960445 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK772019.1\|), blast E-value=0, identity=93.66%
	714-856, BovGen_07222 normal cattle brain Bos taurus cDNA clone (gb\|CO878897.1\|), blast E-value=0, identity=93.75%
	714-856, BovGen_10462 normal cattle brain Bos taurus cDNA clone (gb\|CO882137.1\|), blast E-value=0, identity=93.75%

	1-856, gnl\|bosTau2\|chr3 (19410886-19411743)
	1-856, gnl\|canFam2\|chr38 (24210104-24209382)
	1-856, gnl\|dasNov1\|scaffold_7155 (58346-57610)
	1-856, gnl\|echTel1\|scaffold_320165 (32243-32969)
	1-856, gnl\|hg17\|chr1 (158087525-158088225)
	1-856, gnl\|Hg17\|chr1 (158088446-158087598)
	1-856, gnl\|loxAfr1\|scaffold_22919 (18965-18229)
	1-856, gnl\|mm7\|chr1 (171131306-171130642)
	1-856, gnl\|Mm7\|chr1 (171130420-171131218)
	1-856, gnl\|monDom2\|scaffold_0 (28478190-28477473)
	1-856, gnl\|oryCun1\|scaffold_122230 (27-764)
	1-856, gnl\|panTro1\|chr1 (140154250-140154960)
	1-856, gnl\|rheMac2\|chr1 (139918906-139919606)
	1-856, gnl\|rn3\|chr13 (87235168-87234517)

	pro (0.512033)
	sme (0.305437)
	cst (0.280073)
	gul (0.177588)
	eye (0.170503)
	tbr (0.154178)
	fat (0.147427)
	ste (0.135208)
	sug (0.127291)
	eep (0.122564)
	jca (0.11396)