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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttagttttagctttgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG

Basic information

species Glycine max
transcript GLYMA02G46450.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g20370.1 (Oryza sativa), 3'ss of exon 7
-----------tttagttttagctt--------tgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaa------acagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
           ||| ||| ||||          |  | ||   | |  ||||| |    ||   | ||  | |  | ||    | |  ||  | |  ||  ||  |  |   ||        |||||||| ||||| |||||  ||||| ||||||| ||| | || ||||||||||| || || ||||||||  | |||||||| |||||||
gtaagatgatattttgttgtagcaaatcaaaagtattacatcttttattctttcatgatttaagtgatattaccaaattattctgtttttaaatagcctatcatgaattgaaaatccttctgcagGATGACAACAGATATAACTCAAGCCGAGGTGCCCACCTGAATCTCAAACGTGCTGAAAAGGCTCGGATTCTTGTCAACAAGATTCCAG

upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 7
lower sequence: AT4G26760.1 (Arabidopsis thaliana), 3'ss of exon 7
----tttagttttagctttgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
      ||   || ||| || |   |   |   |  |||    |       ||     ||| ||| || ||  ||||    | |        || | |||||||||| | |||||||||| ||||||| ||||||| || || || |||||  | || ||||||||||||||  |||||| ||| ||| | |
gtatgctaacattggctatgttaataaacacattacttattaagc------atagagttcaattg-atgattcttttgggtttttgt----tctggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG

upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 7
lower sequence: AT5G55230.2 (Arabidopsis thaliana), 3'ss of exon 6
------tttagttttagctttgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
        || |||   ||  |   |    ||||||    | ||  |     | |     | | ||||||  | |  ||   |   |        |   | | |||||| | |||||||| |  |||||||||||||||||||| || |||||  | || ||||||||||||||  |||| | ||| ||||| |
gtaatgcataatttct-ctcagtcactcactatgat----acatcataagacattaactttaaattggatcttgagctttttcatggttttgttttctgagagcagGATCAGAACAGGTACAGCGCAAGCAGAGGTGCACACTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTTAGCAAGATTCCTG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|208073566|gb|GD872775.1|GD872775
EST:     AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGG                         GATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
EST: gi|208259220|gb|GE055470.1|GE055470
EST:     AAAGTTGGCTTGAAGATTATAATCGG                         GATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: AAAGTTGGCTTGAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
EST: gi|207682351|gb|GD665338.1|GD665338
EST:     AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGG                         GATGATAACAGGTA
genomic: AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTA
EST: gi|207735001|gb|GD712532.1|GD712532
EST:     TGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGG                         GATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: TGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
EST: gi|51334691|gb|CO978557.1|CO978557
EST:     AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGG                         GATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
EST: gi|26048331|gb|CA784835.1|CA784835
EST:     GAAGATTATAATCGG                         GATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: GAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
EST: gi|193511966|gb|FK471418.1|FK471418
EST:     GCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGG                         GATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: GCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
EST: gi|10843940|gb|BF067293.1|BF067293
EST:     AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGG                         GATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
EST: gi|193539636|gb|FK498606.1|FK498606
EST:     AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGG                         GATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: AATGGATGTCAGCATGTGAAGAAGAAAGTTGGCTTGAAGATTATAATCGGgtacttaaaa ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
                               ctctgac  putative branch site (score: 3)
           atttggattataattt  TA-rich tract