Non-Coding RNA Search

Ss1.1-Pig4-TMW8052O11.5

Sequence:


               
               ACCTAGCCCCTCAGCCCTCACTCACTTCCCTAGGCAGACAGATGGCCCACTATGGTGCCA
ATGGGACCCTCTTTTTCCTCTGTCCTGTTCTATCTAGCTTGCTAGAAGAGATCACTTTCC
CAGCTCAGAGGCACCTCCCACTTCATTTGGAAAATACCTCCACACTTACTATTGCTCTGC
AGGAGTCGAGTATGGGTAGGTTGAAAACTGGCCCCCACCCGTGACACCACTGCCTTCCTC
TTCATGGTCCTGTGACTTATAGAATTGGAATATCACAGGGTTTAGGGAGGGAGGCAGGGC
CCTGGCTATATGCTGTAGGATGTCAACTACCCTAGGATTAGGCATACCAATGTCCATTCC
TTCTAGAGTTATTTAGGCTTTTTTAATGATTGGAGGCTAAAAAAATGTTAAGTTTTTCTT
TTTTCTACCTCCCAGATTAGGCCTGTTATAAAACTTGTTCCCAATAAGCCTTGTCCCTGA
ATTCAGGGACTCAGCTTCTCCTCAGGGTGAGATGGGGGATACAGTGCCTTTTAAGAGGCT
TCACCAACATCCTAGAAAGCCACTGGCCCTTCTGTTCAGGCAAGACTGGGTAGAAGATCT
GCCCCAGTACCTTGGGAGCCTAGGCTTATTTCGAGTGAGCTCTATGGGAAGAGTTATTCC
TTACTTATTATTCTGGGTTCCTCTTCCTTTCTTGGGATCTGCCCCTCCCTACTCCAATTC
CCAAATCTTCTCACAGTAGAACAGTAGGGATGATTACCCCAAAACCTAGCCAGCTCCCTC
TAGGACCCTTGTAAAAGGGAGGAAATATTCACATGGTTTCAGTATTTTCCCTGCCAGGGG
TCCCAGACCTCTTCTTCCTTCAGAGCTACTCGGGCCATGGCTCCTGCTTCATGGCCATCA
AGGCCTTGGTTTGGTGAGCCCTGGAACTTAATGCCATTTGGCTCAATTGGTGAATAGATG
GAAGAAGCTGAGTGTGTAGAGAGAAGCCTATGACCCATATCCTACAGTTTACTTGACCCC
ACTTTGGCACCTAATAGCCCCTTCCCATCACCTCTCTTCATGGTGATGACCGAGTCCTGC
CTATGTTTAACAAACCTCTAATACAGGTCTTGCCAACAATTGTGCTGTCCCTTGGAGTTG
TAAACCAGAGAGCTGTTAGGGGCTCTGGCCTGGTCCCTTTCACACCCCAACCCCTTTTTC
TCAACCTAGGCGCAGCTTCCTCCTCTTGTCTGTCTCATGTGTGCTCTTTTTCTACCAGTA
TTATATATTTTAGTTGCATCTAACTCAATATTGATTATGTGTTTCTTGCTAATGAACCTT
TAGAAGATATTAGTCTTGAGACAGGATCATTTGGCCTCATTCCCTTACCACCCCTATACG
TGGGAAACATACTATATTGTAAAAGAATATTTTGCCAGAAACATTAATGTTAAGAAGCTT
TCAGTATTAGTGATATCACCTGTCACTATAGGTCATACAGTCCTTTTTTTAAAGTACTTG
GTATTTAGTTTTATTGTTCTTTTTTTGCCTTCTCCCCAGAGTTAATTCCCTAAGGGGCCC
TACTGTCCTTCCATGAAGTGCCCCTAGCCCAAAGCCCATGGCTTTGATCTCTCCCTCTCC
TTGCCTCCTGCTTGACCTTGGGGAGTCATGTGCATTGCTGTGAATTATATTGACACTCTT
GCTAATATGCCCTATATTGGCTAAATTCAAACCTGGAATTGTGGGGCAATCTAGCTGCCT
TAAGGGCAGTATTCCCCCTACCCCACCCCAGGGAAATTGGGAAGAAAGGTTAGATTTTAT
ATTCAGGGTTTTTGTGTGTATTTTTGGGTTTTTAAAATTTGTTTTTGGAGGGGTTTATGC
TTAACCCATGTTCTGTTTCAGTGCCAATAAAATCGAGGAAGAGTTCACAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACCTAGCCCCTCAGCCCTCACTCACTTCCCTAGGCAGACAGATGGCCCACTATGGTGCCA
ATGGGACCCTCTTTTTCCTCTGTCCTGTTCTATCTAGCTTGCTAGAAGAGATCACTTTCC
CAGCTCAGAGGCACCTCCCACTTCATTTGGAAAATACCTCCACACTTACTATTGCTCTGC
AGGAGTCGAGTATGGGTAGGTTGAAAACTGGCCCCCACCCGTGACACCACTGCCTTCCTC
TTCATGGTCCTGTGACTTATAGAATTGGAATATCACAGGGTTTAGGGAGGGAGGCAGGGC
CCTGGCTATATGCTGTAGGATGTCAACTACCCTAGGATTAGGCATACCAATGTCCATTCC
TTCTAGAGTTATTTAGGCTTTTTTAATGATTGGAGGCTAAAAAAATGTTAAGTTTTTCTT
TTTTCTACCTCCCAGATTAGGCCTGTTATAAAACTTGTTCCCAATAAGCCTTGTCCCTGA
ATTCAGGGACTCAGCTTCTCCTCAGGGTGAGATGGGGGATACAGTGCCTTTTAAGAGGCT
TCACCAACATCCTAGAAAGCCACTGGCCCTTCTGTTCAGGCAAGACTGGGTAGAAGATCT
GCCCCAGTACCTTGGGAGCCTAGGCTTATTTCGAGTGAGCTCTATGGGAAGAGTTATTCC
TTACTTATTATTCTGGGTTCCTCTTCCTTTCTTGGGATCTGCCCCTCCCTACTCCAATTC
CCAAATCTTCTCACAGTAGAACAGTAGGGATGATTACCCCAAAACCTAGCCAGCTCCCTC
TAGGACCCTTGTAAAAGGGAGGAAATATTCACATGGTTTCAGTATTTTCCCTGCCAGGGG
TCCCAGACCTCTTCTTCCTTCAGAGCTACTCGGGCCATGGCTCCTGCTTCATGGCCATCA
AGGCCTTGGTTTGGTGAGCCCTGGAACTTAATGCCATTTGGCTCAATTGGTGAATAGATG
GAAGAAGCTGAGTGTGTAGAGAGAAGCCTATGACCCATATCCTACAGTTTACTTGACCCC
ACTTTGGCACCTAATAGCCCCTTCCCATCACCTCTCTTCATGGTGATGACCGAGTCCTGC
CTATGTTTAACAAACCTCTAATACAGGTCTTGCCAACAATTGTGCTGTCCCTTGGAGTTG
TAAACCAGAGAGCTGTTAGGGGCTCTGGCCTGGTCCCTTTCACACCCCAACCCCTTTTTC
TCAACCTAGGCGCAGCTTCCTCCTCTTGTCTGTCTCATGTGTGCTCTTTTTCTACCAGTA
TTATATATTTTAGTTGCATCTAACTCAATATTGATTATGTGTTTCTTGCTAATGAACCTT
TAGAAGATATTAGTCTTGAGACAGGATCATTTGGCCTCATTCCCTTACCACCCCTATACG
TGGGAAACATACTATATTGTAAAAGAATATTTTGCCAGAAACATTAATGTTAAGAAGCTT
TCAGTATTAGTGATATCACCTGTCACTATAGGTCATACAGTCCTTTTTTTAAAGTACTTG
GTATTTAGTTTTATTGTTCTTTTTTTGCCTTCTCCCCAGAGTTAATTCCCTAAGGGGCCC
TACTGTCCTTCCATGAAGTGCCCCTAGCCCAAAGCCCATGGCTTTGATCTCTCCCTCTCC
TTGCCTCCTGCTTGACCTTGGGGAGTCATGTGCATTGCTGTGAATTATATTGACACTCTT
GCTAATATGCCCTATATTGGCTAAATTCAAACCTGGAATTGTGGGGCAATCTAGCTGCCT
TAAGGGCAGTATTCCCCCTACCCCACCCCAGGGAAATTGGGAAGAAAGGTTAGATTTTAT
ATTCAGGGTTTTTGTGTGTATTTTTGGGTTTTTAAAATTTGTTTTTGGAGGGGTTTATGC
TTAACCCATGTTCTGTTTCAGTGCCAATAAAATCGAGGAAGAGTTCACAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 5 entry(ies)

More info

Predicted RNA structure(s): 5 entry(ies)

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               1-113, - strand, RNAz p=0.985795
               

               
               369-640, - strand, RNAz p=0.914166
               

               
               874-993, - strand, RNAz p=0.999353
               

               
               1532-1646, - strand, RNAz p=0.999971
               

               
               1755-1855, - strand, RNAz p=0.96618

Predicted RNA structure(s): 5 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


               
               1-113, - strand, RNAz p=0.985795
               

               
               369-640, - strand, RNAz p=0.914166
               

               
               874-993, - strand, RNAz p=0.999353
               

               
               1532-1646, - strand, RNAz p=0.999971
               

               
               1755-1855, - strand, RNAz p=0.96618

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               1552-1642, 1455342 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT886250.1|), 
blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, 1464489 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887775.1|), 
blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, 1466025 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT889170.1|), 
blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, 1458606 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT896499.1|), 
blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, HW_Fat_3_G06 Bos taurus CF-24-HW fat cDNA library Bos taurus cDNA, 
(gb|DV781813.1|), blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, 000929BEMN024696HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY071535.1|), blast E-value=8e-24, identity=91.21%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               1552-1642, 1455342 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT886250.1|), 
blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, 1464489 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887775.1|), 
blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, 1466025 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT889170.1|), 
blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, 1458606 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT896499.1|), 
blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, HW_Fat_3_G06 Bos taurus CF-24-HW fat cDNA library Bos taurus cDNA, 
(gb|DV781813.1|), blast E-value=8e-24, identity=91.21% 
               

               
               1552-1642, 000929BEMN024696HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY071535.1|), blast E-value=8e-24, identity=91.21%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1907, gnl|bosTau2|chrX (27954874-27956795)
               

               
               1-1907, gnl|Hg17|chrX (64742924-64744814)
               

               
               1-1907, gnl|Mm7|chrX (91494133-91495908)

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


               
               1-1907, gnl|bosTau2|chrX (27954874-27956795)
               

               
               1-1907, gnl|Hg17|chrX (64742924-64744814)
               

               
               1-1907, gnl|Mm7|chrX (91494133-91495908)

Expressed library(ies): 14 entry(ies)

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Expressed library(ies): 14 entry(ies)

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               cbr (1.40773)
               

               
               sme (0.610874)
               

               
               spl (0.286369)
               

               
               cov (0.264306)
               

               
               med (0.232504)
               

               
               cmu (0.186393)
               

               
               cki (0.165235)
               

               
               hyp (0.142837)
               

               
               cst (0.140036)
               

               
               cly (0.120642)
               

               
               cbl (0.114797)
               

               
               jca (0.11396)
               

               
               nbm (0.0993246)
               

               
               ldo (0.0970026)

Expressed library(ies): 14 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


               
               cbr (1.40773)
               

               
               sme (0.610874)
               

               
               spl (0.286369)
               

               
               cov (0.264306)
               

               
               med (0.232504)
               

               
               cmu (0.186393)
               

               
               cki (0.165235)
               

               
               hyp (0.142837)
               

               
               cst (0.140036)
               

               
               cly (0.120642)
               

               
               cbl (0.114797)
               

               
               jca (0.11396)
               

               
               nbm (0.0993246)
               

               
               ldo (0.0970026)

	1-113, - strand, RNAz p=0.985795
	369-640, - strand, RNAz p=0.914166
	874-993, - strand, RNAz p=0.999353
	1532-1646, - strand, RNAz p=0.999971
	1755-1855, - strand, RNAz p=0.96618

	1552-1642, 1455342 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT886250.1\|), blast E-value=8e-24, identity=91.21%
	1552-1642, 1464489 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT887775.1\|), blast E-value=8e-24, identity=91.21%
	1552-1642, 1466025 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT889170.1\|), blast E-value=8e-24, identity=91.21%
	1552-1642, 1458606 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT896499.1\|), blast E-value=8e-24, identity=91.21%
	1552-1642, HW_Fat_3_G06 Bos taurus CF-24-HW fat cDNA library Bos taurus cDNA, (gb\|DV781813.1\|), blast E-value=8e-24, identity=91.21%
	1552-1642, 000929BEMN024696HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY071535.1\|), blast E-value=8e-24, identity=91.21%

	1-1907, gnl\|bosTau2\|chrX (27954874-27956795)
	1-1907, gnl\|Hg17\|chrX (64742924-64744814)
	1-1907, gnl\|Mm7\|chrX (91494133-91495908)

	cbr (1.40773)
	sme (0.610874)
	spl (0.286369)
	cov (0.264306)
	med (0.232504)
	cmu (0.186393)
	cki (0.165235)
	hyp (0.142837)
	cst (0.140036)
	cly (0.120642)
	cbl (0.114797)
	jca (0.11396)
	nbm (0.0993246)
	ldo (0.0970026)