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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggctgtgggttttatttttctccatattgatatttgctaggttgcctgcctgctaactggtttgggaatttagGTAGTGTTCTGCGTTGTGATGTCACTGGGAAGATTCTCATGAAGTGCTTTCTTTCTGGAATGCCTGATTTAAAGTTGGGTTTGAATGACAAGATTGGTCT

Basic information

species Glycine max
transcript GLYMA05G23670.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G23670.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G46630.2 (Arabidopsis thaliana), 3'ss of exon 6
----------gtgggctgtgggttttattt---ttctccatattgat-atttgctaggt-tgcctgcctgctaactggtttgggaat--ttagGTAGTGTTCTGCGTTGTGATGTCACTGGGAAGATTCTCATGAAGTGCTTTCTTTCTGGAATGCCTGATTTAAAGTTGGGTTTGAATGACAAGATTGGTCT
          |     | ||   ||| ||    || ||  | ||| | |||||||  || || |||  |  |   |  | ||| ||   ||||| | |||||| || |||||||| || |||||| || | ||||| || || ||||| |||||||||||||| |||||||| |||||||| || ||||||||
gtaaataattgccttttatgaagttttttgaagttgtctttcttgttgatttgctgtgtatgactggtt-ttgcattttatggaaacggttagGCAATGTTCTTCGGTGTGATGTGACGGGGAAGGTTTTAATGAAATGTTTCCTTTCGGGAATGCCTGATTTGAAGTTGGGGTTGAATGATAAAATTGGTCT

upper sequence: GLYMA05G23670.2 (Glycine max), 3'ss of exon 6
lower sequence: PP1S54_156V6.1 (Physcomitrella patens), 3'ss of exon 6
------------------------gtgggctgtgggttttatttttctccatat-tgatatttgctaggttgcctgcctgctaactggtttgggaatttagGTAGTGTTCTGCGTTGTGATGTCACTGGGAAGATTCTCATGAAGTGCTTTCTTTCTGGAATGCCTGATTTAAAGTTGGGTTTGAATGACAAGATTGGTCT
                        |   |||   |||  | || | |   || | | || |  ||  |  | |   | ||     | ||||||   |  ||| | |  | |||||||||| || ||||| |||||| | ||||||||||| ||||| |||||||| ||| | ||  | ||  | || ||||| || || ||
acttatttatttctttatttattggaaagcttcaggtggt-ttatgcatgatgtatcatctcagcctgagtacaatcttgaacggttgtttggtgttgcagGAACTACTTTGCGTTGTGACGTGACTGGCAAGATTTTAATGAAGTGCTTCCTTTCGGGAATGCCGGATCTGAAACTTGGACTCAACGACAAAATAGGACT

upper sequence: GLYMA05G23670.2 (Glycine max), 3'ss of exon 6
lower sequence: EFJ22278 (Selaginella moellendorffii), 3'ss of exon 6
gtgggctgtgggttttatttttctccatattgatatttgctaggttgcctgcctgctaactggtttgggaatttagGTAGTGTTCTGCGTTGTGATGTCACTGGGAAGATTCTCATGAAGTGCTTTCTTTCTGGAATGCCTGATTTAAAGTTGGGTTTGAATGACAAGATTGGTCT
               ||     ||    | ||| |  | || | |||      | ||  ||  |||    || |||| |   | ||  | || || || || |||||||||||||||||||||||||| || || ||||||||||||||| | ||  | || ||||| || || ||
--------------gtaaggcgcttgccactgaaaagtccttg-ttggaaatattcttccttcttt----atgtagGGACAATCCTCAGATGCGACGTAACAGGGAAGATTCTCATGAAGTGCTTTCTATCGGGCATGCCTGATTTAAAGCTCGGGCTCAACGACAAAATAGGACT

upper sequence: GLYMA05G23670.2 (Glycine max), 3'ss of exon 6
lower sequence: EFJ25669 (Selaginella moellendorffii), 3'ss of exon 6
gtgggctgtgggttttatttttctccatattgatatttgctaggttgcctgcctgctaactggtttgggaatttagGTAGTGTTCTGCGTTGTGATGTCACTGGGAAGATTCTCATGAAGTGCTTTCTTTCTGGAATGCCTGATTTAAAGTTGGGTTTGAATGACAAGATTGGTCT
               ||     ||    | ||| |  | || | |||      | ||  ||  |||    || |||| |   | ||  | || || || || |||||||||||||||||||||||||| || || ||||||||| ||||| | ||  | || ||||| || || ||
--------------gtaaggcgcttgccactgaaaagtccttg-ttggaaatattcttccttcttt----atgtagGGACAATCCTCAGATGCGACGTAACAGGGAAGATTCTCATGAAGTGCTTTCTATCGGGCATGCCTGATCTAAAGCTCGGGCTCAACGACAAAATAGGACT

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|151413117|gb|EV282925.1|EV282925
EST:     GTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTTATGTCTTCTAAAG                         GTAGTGTTCTGCGTTGTGATGTCACTG
genomic: GTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAGgtgggctgtg ... gggaatttagGTAGTGTTCTGCGTTGTGATGTCACTG
EST: gi|16349156|gb|BI974751.1|BI974751
EST:     GGTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAG                         GTAGTGTTCTGCGTTGTGATGTCACTGGGAAGATTCTCATGAAGTGCTTTC
genomic: GGTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAGgtgggctgtg ... gggaatttagGTAGTGTTCTGCGTTGTGATGTCACTGGGAAGATTCTCATGAAGTGCTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctccatattgatatttgctaggttgcctgcctgctaactggtttgggaatttagGTAGTGTTCTGCGTTGTGATGTCACTGGGAAGATTCTCATGAAGTGCTTTCTTTCTGGAATGCCTGATTTAAAGTTGGGTTTGAATGACAAGATTGGTCT
                                tgctaac  putative branch site (score: 1)
     atattgatattt  TA-rich tract