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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTGGTCCTCTTACTGTAGTTGAATACAGTGAGTTGGACCAGTCACTAGCTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctattcttcctatatataatctcattgcttctcctttatgcactcaatttgccataagctttgaggatcatttccctttaaatttgggtatgat...

Basic information

species Glycine max
transcript GLYMA08G09170.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G09170.2 (Glycine max), 5'ss of exon 12
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 5'ss of exon 11
AGGTGGTCCTCTTACTGTAGTTGAATACAGTGAGTTGGACCAGTCACTAGCTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgt-tagtctattcttcctatatataatctcattgctt-ctcctttatgcactcaatttgccataagctttgaggatcatttccctttaaatttgggtatgat-
|||||| |||||| | || ||||| |||||||||||||| |   |||| |||  |||| ||||||| | |||||| || ||||| | ||||||||||||||| ||| ||  | |  |  | | | |||| ||   || ||  ||| | ||   |   |    |    ||||  |||  ||    |||   | ||||       
AGGTGGACCTCTTTCCGTCGTTGAGTACAGTGAGTTGGATCCAACACTGGCTAGTGCAATCAATCAGGAAACTGGACGGCTTCGCTATTGTTGGAGTAATgtataggctgctgtctccttgtctgatctaatattttgctatttttttcaaatataattttgtgt-ttttggtgat--ttaaattttgcttctgggctcagcc
















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|208191545|gb|GD992781.1|GD992781
EST:     TTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
genomic: TTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|254342038|gb|GR853175.1|GR853175
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|4313957|gb|AI461076.1|AI461076
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAATCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|208215335|gb|GE011090.1|GE011090
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|298176684|gb|HO026805.1|HO026805
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|151397105|gb|EV266978.1|EV266978
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAATCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|254329705|gb|GR839258.1|GR839258
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAATCAAGTGGCAA-TGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGTGGTCCTCTTACTGTAGTTGAATACAGTGAGTTGGACCAGTCACTAGCTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctattcttcctatatataatctcattgcttctcctttatgcactcaatttgccataagctttgaggatcatttccctttaaatttgggtatgat

- - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG