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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTAATTCCTGATGGTGTTGACAAGAATGGCAAACCTCATAAACTGAGATTGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatcatgtcatattttgcattattgtttctggggtttaatttttgaagactataaaactttatttttttttttatcaattttgttgctttcgtac...

Basic information

species Glycine max
transcript GLYMA16G23710.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G23710.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0023g03510.t01 (Vitis vinifera), 5'ss of exon 3
GGTAATTCCTGATGGTGTTGACAAGAATGGCAAACCTCATAAACTGAGATTGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatcatgtcatattttgcattattgtttctggggtttaatttttgaagacta-taaaactttatttttttttttatcaattttgttgctttcgtac
||||||| | |||||||||||||||||||| || ||||| || ||||||||||| || ||||| ||||||||| ||||||| |||||||| ||||| ||||| ||  |  |         ||  ||    ||||    |||  |   ||| ||  || || |   ||   |    |||| |||| | |||    ||  || 
GGTAATTGCAGATGGTGTTGACAAGAATGGGAAGCCTCACAAGCTGAGATTGTACTCAATTGCAAGCAGTGCCCTTGGTGACTTTGGAGACTCCAAAACTgtaagccttttacttccaaatgatttgcactttccatagttataggattgcagcatagtatataattgaatggggttttctcaagtctgtatgatttata-
















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|11688404|gb|BF596080.1|BF596080
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACCAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|19452467|gb|BM953877.1|BM953877
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|213610723|gb|DB961198.1|DB961198
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|120532662|gb|EH260795.1|EH260795
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|120529657|gb|EH257791.1|EH257791
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGACAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|213611575|gb|DB960855.1|DB960855
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|213600291|gb|DB955873.1|DB955873
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|105634481|gb|DW247568.1|DW247568
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAAACT                         GTTTCTCTATGCGTGAAACGGCTGGTGT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGT
EST: gi|209707438|gb|BW670951.1|BW670951
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|213592264|gb|DB965999.1|DB965999
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|6667179|gb|AW278638.1|AW278638
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATCTTGGAGATTCCAAAACT                         GGTTCTCTATGCGTGAAACAGCTAGTGTACACAAATGAGAATGGAGA
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGA
EST: gi|192296690|gb|FG991258.1|FG991258
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|13480735|gb|BG510078.1|BG510078
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTGAAACGGCTAGTGTACACAAATGAAAATGGAGAAATT
EST: gi|209718136|gb|BW657795.1|BW657795
EST:     TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACT                         GTTTCTCTATGCGTG
genomic: TGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatca ... ttccatacagGTTTCTCTATGCGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTAATTCCTGATGGTGTTGACAAGAATGGCAAACCTCATAAACTGAGATTGTATTCTATTGCTAGCAGTGCCATTGGTGATTTTGGAGATTCCAAGACTgtgagtatcatgtcatattttgcattattgtttctggggtttaatttttgaagactataaaactttatttttttttttatcaattttgttgctttcgtac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT