Non-Coding RNA Search

Ss1.1-Pig3-SRG8019L09.5

Sequence:


               
               GAAGCAATCCCACCGGAGGCCTTGTAGGACTAAGGATACCAACATCAAAAGTGTAATCAG
CCTCATTGGACCACTGGTCAGAAATGTCTGTGTTACGTTATTCATTGTAAATTTTCATTC
TGTTTTGCATGTCAGTTTAGCATTATGTAAACATTTACAATTAGGTTACATTGTTTTAAG
AACTAAGTAGCATAAGTGAAGCATGATCCAAAATACTTGATTATTGCATTTTCAGAGCAT
AAACCATGGTTAAAACTGCTACTGGCATCAGAATTGAAATTCATACATTTAAGTAGATGT
TTAGGTACAGATTGCAAAATCTGTTAAAGCAAAACACTTTGGAAGAGTGTAGAGAATGGT
AAATGCCAAATGTTGTGGCAGGTTTATGCTCTGAACCACACAAAAAAATTGAGGAAGCAT
TTTTTTAAACAGTCAGTTTAGATTGTTTTTAGAATTACTGCTTTTTGTTCTAATTTTCCA
CAACTATTAATTTCACTTGTACATGGCACAACCCATCATTCATGCCCATGTGCCATATTA
GATGTTCATTTTCTGAGCTCAATATGGTATATATAAATATATATATAAATATATATATAT
ATAATGTCTGTGCAAGTAAGAAAAAAAAAGCATATTCTTTGTGCCTTGTATTTTGGGGAA
ACTATAAAACTGGTAATATTTTGTATGATGAAAACCCTAATGAGGAAAAACAAGATATAT
AGATGGAAAAATTATGGGGTTTAAATGTTTTTTTGTTCCAACTCTTTTTCAGATTTTTTG
AATGTATATAGGACTATGTTGAAATGTAGATATATGCCACAGAGTCTGTGTATTGTATAA
AAAACAAAACAAAAAAACAAACAAAAAAAAAAAGATGGCTCTAGAAAACTCATATTTCGG
TACTTGACCGGAAGAAGACAAATACTTGCACATTATTGCGATTGTTTTATTTTTTGTACC
AAAGACAAATGCAACTGATATGGCAAACTGCCAGTCTAAGTAAAGTTTTGCACAGCTTAC
ATGATACTGTATGAATGTATGAAAAAAAAAAGGAGA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAAGCAATCCCACCGGAGGCCTTGTAGGACTAAGGATACCAACATCAAAAGTGTAATCAG
CCTCATTGGACCACTGGTCAGAAATGTCTGTGTTACGTTATTCATTGTAAATTTTCATTC
TGTTTTGCATGTCAGTTTAGCATTATGTAAACATTTACAATTAGGTTACATTGTTTTAAG
AACTAAGTAGCATAAGTGAAGCATGATCCAAAATACTTGATTATTGCATTTTCAGAGCAT
AAACCATGGTTAAAACTGCTACTGGCATCAGAATTGAAATTCATACATTTAAGTAGATGT
TTAGGTACAGATTGCAAAATCTGTTAAAGCAAAACACTTTGGAAGAGTGTAGAGAATGGT
AAATGCCAAATGTTGTGGCAGGTTTATGCTCTGAACCACACAAAAAAATTGAGGAAGCAT
TTTTTTAAACAGTCAGTTTAGATTGTTTTTAGAATTACTGCTTTTTGTTCTAATTTTCCA
CAACTATTAATTTCACTTGTACATGGCACAACCCATCATTCATGCCCATGTGCCATATTA
GATGTTCATTTTCTGAGCTCAATATGGTATATATAAATATATATATAAATATATATATAT
ATAATGTCTGTGCAAGTAAGAAAAAAAAAGCATATTCTTTGTGCCTTGTATTTTGGGGAA
ACTATAAAACTGGTAATATTTTGTATGATGAAAACCCTAATGAGGAAAAACAAGATATAT
AGATGGAAAAATTATGGGGTTTAAATGTTTTTTTGTTCCAACTCTTTTTCAGATTTTTTG
AATGTATATAGGACTATGTTGAAATGTAGATATATGCCACAGAGTCTGTGTATTGTATAA
AAAACAAAACAAAAAAACAAACAAAAAAAAAAAGATGGCTCTAGAAAACTCATATTTCGG
TACTTGACCGGAAGAAGACAAATACTTGCACATTATTGCGATTGTTTTATTTTTTGTACC
AAAGACAAATGCAACTGATATGGCAAACTGCCAGTCTAAGTAAAGTTTTGCACAGCTTAC
ATGATACTGTATGAATGTATGAAAAAAAAAAGGAGA

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

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

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               277-614, - strand, RNAz p=0.989637
               

               
               851-1009, + strand, RNAz p=0.948543

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


               
               277-614, - strand, RNAz p=0.989637
               

               
               851-1009, + strand, RNAz p=0.948543

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               343-567, 273064 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF606111.1|), 
blast E-value=0, identity=87.22% 
               

               
               281-567, 701243 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB447246.1|), 
blast E-value=0, identity=87.89% 
               

               
               427-567, 701627 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB447615.1|), 
blast E-value=0, identity=93.62% 
               

               
               285-567, LIB30320_043_G10_SP6_1 LIB30320 Canis familiaris cDNA clone 
(gb|DN266184.1|), blast E-value=0, identity=86.27% 
               

               
               297-567, LIB30321_006_H03_SP6_1 LIB30321 Canis familiaris cDNA clone 
(gb|DN272751.1|), blast E-value=0, identity=85.66% 
               

               
               285-536, LIB3629-022-Q1-K1-D8 LIB3629 Canis familiaris cDNA clone 
(gb|DN365600.1|), blast E-value=0, identity=84.58%

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


               
               343-567, 273064 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF606111.1|), 
blast E-value=0, identity=87.22% 
               

               
               281-567, 701243 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB447246.1|), 
blast E-value=0, identity=87.89% 
               

               
               427-567, 701627 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB447615.1|), 
blast E-value=0, identity=93.62% 
               

               
               285-567, LIB30320_043_G10_SP6_1 LIB30320 Canis familiaris cDNA clone 
(gb|DN266184.1|), blast E-value=0, identity=86.27% 
               

               
               297-567, LIB30321_006_H03_SP6_1 LIB30321 Canis familiaris cDNA clone 
(gb|DN272751.1|), blast E-value=0, identity=85.66% 
               

               
               285-536, LIB3629-022-Q1-K1-D8 LIB3629 Canis familiaris cDNA clone 
(gb|DN365600.1|), blast E-value=0, identity=84.58%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of BC041709, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of BC041709, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               4-1049, gnl|bosTau2|chr3 (61240396-61239347)
               

               
               4-1049, gnl|Hg17|chr5 (172493302-172494355)
               

               
               4-1049, gnl|Mm7|chr17 (24956265-24957308)

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


               
               4-1049, gnl|bosTau2|chr3 (61240396-61239347)
               

               
               4-1049, gnl|Hg17|chr5 (172493302-172494355)
               

               
               4-1049, gnl|Mm7|chr17 (24956265-24957308)

	277-614, - strand, RNAz p=0.989637
	851-1009, + strand, RNAz p=0.948543

	343-567, 273064 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BF606111.1\|), blast E-value=0, identity=87.22%
	281-567, 701243 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB447246.1\|), blast E-value=0, identity=87.89%
	427-567, 701627 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB447615.1\|), blast E-value=0, identity=93.62%
	285-567, LIB30320_043_G10_SP6_1 LIB30320 Canis familiaris cDNA clone (gb\|DN266184.1\|), blast E-value=0, identity=86.27%
	297-567, LIB30321_006_H03_SP6_1 LIB30321 Canis familiaris cDNA clone (gb\|DN272751.1\|), blast E-value=0, identity=85.66%
	285-536, LIB3629-022-Q1-K1-D8 LIB3629 Canis familiaris cDNA clone (gb\|DN365600.1\|), blast E-value=0, identity=84.58%

	4-1049, gnl\|bosTau2\|chr3 (61240396-61239347)
	4-1049, gnl\|Hg17\|chr5 (172493302-172494355)
	4-1049, gnl\|Mm7\|chr17 (24956265-24957308)