Non-Coding RNA Search

Ss1.1-Pig4-TMW8024A14.3

Sequence:


               
               TTACTGCGTTGCTTCATGCTCCTAGTTGACCCCAGGCCCCTGCTTCTCCCTCTAGGAGCC
TAAAGACTCTCCTGGCCTACAGCTCAGCCTTCTCTCACCTACTATGTCTGTCCAACAGGT
CTGCATGGGTCCCTGATGAGAACAGCTGCCTGGCCTTCCCTCCCTGTCTGCCCAGGGATC
TGAGTTTTTGAGTAGGGGATGAGGGAAGATTGTAATCTCATTACCACACACTTCCCTTTC
CCCCATCCCTGTTCAACTTTCATGTCAATTTTGAGGCTGGAGGATTTGGGCCAAGACTCT
TGACAGCACTTACTCAAATTCCACCTTCTGCTACAAATTTTAGCTAAAGGATTTGGAGGC
TTTTTGCGGGGGAGGCAGGCTGGGAAAAGGGTAGAGCTGGATAATAAAAACAGTCTACTC
TCTGGGAAAGTTGGAAGGAGTCAGTTTTCCTTCCACCCTCAATTTCTACCTCCATAGACT
GGCCAGAATTTAGCTTCAGTGAGAGATCTGGAATGGTTGACATGATTTTACATCAACCAA
TAATTTTCTCCTACCTTTTCAGCACTTAATCTAGGAACAAAGCTCACCCCACCTCCCTCA
GGCCTTTTCACTGCCAGGCTCCTGTCCCCTTGTTTAATGGAGTTCTAGTCAGTTTCCAGC
CTCTCTTCAAGTGCTTAGTTCCCTCCATCTGGGGAGCCCTGGAGGGGAGCCTGGGGACCA
GGACTTGAATCTCTGGGAGGAGAATCTTGGGCAGAATCTATTTTTCTAGTTAACCCTTTG
CCTTCTGTCACTTAATCAGCTTTTGTCCTCTGCTTTGATGGCTGAGGCCAATTTATGCTC
CTGGGGGAAAGGGAAGATGGGTTGTGTTGTGAAAATAAAAAGTTTATTTGCTGCTAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTACTGCGTTGCTTCATGCTCCTAGTTGACCCCAGGCCCCTGCTTCTCCCTCTAGGAGCC
TAAAGACTCTCCTGGCCTACAGCTCAGCCTTCTCTCACCTACTATGTCTGTCCAACAGGT
CTGCATGGGTCCCTGATGAGAACAGCTGCCTGGCCTTCCCTCCCTGTCTGCCCAGGGATC
TGAGTTTTTGAGTAGGGGATGAGGGAAGATTGTAATCTCATTACCACACACTTCCCTTTC
CCCCATCCCTGTTCAACTTTCATGTCAATTTTGAGGCTGGAGGATTTGGGCCAAGACTCT
TGACAGCACTTACTCAAATTCCACCTTCTGCTACAAATTTTAGCTAAAGGATTTGGAGGC
TTTTTGCGGGGGAGGCAGGCTGGGAAAAGGGTAGAGCTGGATAATAAAAACAGTCTACTC
TCTGGGAAAGTTGGAAGGAGTCAGTTTTCCTTCCACCCTCAATTTCTACCTCCATAGACT
GGCCAGAATTTAGCTTCAGTGAGAGATCTGGAATGGTTGACATGATTTTACATCAACCAA
TAATTTTCTCCTACCTTTTCAGCACTTAATCTAGGAACAAAGCTCACCCCACCTCCCTCA
GGCCTTTTCACTGCCAGGCTCCTGTCCCCTTGTTTAATGGAGTTCTAGTCAGTTTCCAGC
CTCTCTTCAAGTGCTTAGTTCCCTCCATCTGGGGAGCCCTGGAGGGGAGCCTGGGGACCA
GGACTTGAATCTCTGGGAGGAGAATCTTGGGCAGAATCTATTTTTCTAGTTAACCCTTTG
CCTTCTGTCACTTAATCAGCTTTTGTCCTCTGCTTTGATGGCTGAGGCCAATTTATGCTC
CTGGGGGAAAGGGAAGATGGGTTGTGTTGTGAAAATAAAAAGTTTATTTGCTGCTAAAAA
AAAAAAAAAAAA

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

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

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               154-303, - strand, RNAz p=0.999811
               

               
               384-496, + strand, RNAz p=0.835366
               

               
               606-765, - strand, RNAz p=0.995174

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


               
               154-303, - strand, RNAz p=0.999811
               

               
               384-496, + strand, RNAz p=0.835366
               

               
               606-765, - strand, RNAz p=0.995174

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               156-291, 705607 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB450907.1|), 
blast E-value=1e-29, identity=88.24% 
               

               
               164-291, 1464352 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887650.1|), 
blast E-value=1e-29, identity=89.06% 
               

               
               164-291, Hw_loin_40_A01 Bos taurus CF-24-HW loin cDNA library Bos taurus 
(gb|DV794989.1|), blast E-value=1e-29, identity=89.06% 
               

               
               156-291, 000516BPPA005096HT BPPA Bos taurus cDNA, mRNA sequence 
(gb|DY091028.1|), blast E-value=1e-29, identity=88.24% 
               

               
               156-291, 000510BPPA003736HT BPPA Bos taurus cDNA, mRNA sequence 
(gb|DY114078.1|), blast E-value=1e-29, identity=88.24% 
               

               
               156-291, 000118BPBA010376HT BPBA Bos taurus cDNA, mRNA sequence 
(gb|DY216985.1|), blast E-value=1e-29, identity=88.24%

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


               
               156-291, 705607 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB450907.1|), 
blast E-value=1e-29, identity=88.24% 
               

               
               164-291, 1464352 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887650.1|), 
blast E-value=1e-29, identity=89.06% 
               

               
               164-291, Hw_loin_40_A01 Bos taurus CF-24-HW loin cDNA library Bos taurus 
(gb|DV794989.1|), blast E-value=1e-29, identity=89.06% 
               

               
               156-291, 000516BPPA005096HT BPPA Bos taurus cDNA, mRNA sequence 
(gb|DY091028.1|), blast E-value=1e-29, identity=88.24% 
               

               
               156-291, 000510BPPA003736HT BPPA Bos taurus cDNA, mRNA sequence 
(gb|DY114078.1|), blast E-value=1e-29, identity=88.24% 
               

               
               156-291, 000118BPBA010376HT BPBA Bos taurus cDNA, mRNA sequence 
(gb|DY216985.1|), blast E-value=1e-29, identity=88.24%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of AX775791, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of AX775791, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-895, gnl|bosTau2|chr7 (27006165-27007053)
               

               
               1-895, gnl|Hg17|chr5 (180594483-180595412)
               

               
               1-895, gnl|Mm7|chr11 (48763894-48763153)

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


               
               1-895, gnl|bosTau2|chr7 (27006165-27007053)
               

               
               1-895, gnl|Hg17|chr5 (180594483-180595412)
               

               
               1-895, gnl|Mm7|chr11 (48763894-48763153)

Expressed library(ies): 11 entry(ies)

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Expressed library(ies): 11 entry(ies)

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               amn (0.417711)
               

               
               spl (0.286369)
               

               
               mas (0.210305)
               

               
               nbm (0.198649)
               

               
               col (0.195008)
               

               
               ill (0.175593)
               

               
               duo (0.172801)
               

               
               mcp (0.170648)
               

               
               cst (0.140036)
               

               
               eru (0.120048)
               

               
               ldo (0.0970026)

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


               
               amn (0.417711)
               

               
               spl (0.286369)
               

               
               mas (0.210305)
               

               
               nbm (0.198649)
               

               
               col (0.195008)
               

               
               ill (0.175593)
               

               
               duo (0.172801)
               

               
               mcp (0.170648)
               

               
               cst (0.140036)
               

               
               eru (0.120048)
               

               
               ldo (0.0970026)

	154-303, - strand, RNAz p=0.999811
	384-496, + strand, RNAz p=0.835366
	606-765, - strand, RNAz p=0.995174

	156-291, 705607 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB450907.1\|), blast E-value=1e-29, identity=88.24%
	164-291, 1464352 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT887650.1\|), blast E-value=1e-29, identity=89.06%
	164-291, Hw_loin_40_A01 Bos taurus CF-24-HW loin cDNA library Bos taurus (gb\|DV794989.1\|), blast E-value=1e-29, identity=89.06%
	156-291, 000516BPPA005096HT BPPA Bos taurus cDNA, mRNA sequence (gb\|DY091028.1\|), blast E-value=1e-29, identity=88.24%
	156-291, 000510BPPA003736HT BPPA Bos taurus cDNA, mRNA sequence (gb\|DY114078.1\|), blast E-value=1e-29, identity=88.24%
	156-291, 000118BPBA010376HT BPBA Bos taurus cDNA, mRNA sequence (gb\|DY216985.1\|), blast E-value=1e-29, identity=88.24%

	1-895, gnl\|bosTau2\|chr7 (27006165-27007053)
	1-895, gnl\|Hg17\|chr5 (180594483-180595412)
	1-895, gnl\|Mm7\|chr11 (48763894-48763153)

	amn (0.417711)
	spl (0.286369)
	mas (0.210305)
	nbm (0.198649)
	col (0.195008)
	ill (0.175593)
	duo (0.172801)
	mcp (0.170648)
	cst (0.140036)
	eru (0.120048)
	ldo (0.0970026)