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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcgcgaatcgcgtttctctcatctcacgcgcctccattttattatttccattacaatgaattatgaaatgcaaattttttttttttttttgttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAGTTTTAAGAAAACGAAGTCCGTTTTGATTGCCAAG

Basic information

species Glycine max
transcript GLYMA19G41690.1
intron # 1
splice site 3'
intron type U2

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|298196646|gb|HO041389.1|HO041389
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|193529334|gb|FK487801.1|FK487801
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|151396704|gb|EV266577.1|EV266577
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|193495658|gb|FK462858.1|FK462858
EST:     A-CGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGC
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGC
EST: gi|193655953|gb|FK606625.1|FK606625
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|193530156|gb|FK486173.1|FK486173
EST:     AGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|7146459|gb|AW508381.1|AW508381
EST:     TGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: TGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|15812329|gb|BI784604.1|BI784604
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|193709902|gb|FK642152.1|FK642152
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGC
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGC
EST: gi|7925424|gb|AW831389.1|AW831389
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|209699181|gb|BW664358.1|BW664358
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|193530323|gb|FK483722.1|FK483722
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|298164091|gb|HO013736.1|HO013736
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|192330240|gb|FK019835.1|FK019835
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|192299182|gb|FG990454.1|FG990454
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|18692859|gb|BM521707.1|BM521707
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|193519806|gb|FK476299.1|FK476299
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAG
EST: gi|193728746|gb|FK667710.1|FK667710
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
EST: gi|193546883|gb|FK500526.1|FK500526
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGC
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGC
EST: gi|151410365|gb|EV280180.1|EV280180
EST:     AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTG                         GTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG
genomic: AACGAGGTTGGCAAGGATCGCGCCGCTCTCGTTGAGTTTTACGCTCCCTGgtacgcgcga ... ttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccattacaatgaattatgaaatgcaaattttttttttttttttgttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAGTTTTAAGAAAACGAAGTCCGTTTTGATTGCCAAG
                            tttttttttttttttt  CT-rich tract
     tacaatgaattatgaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgcgcgaatcgcgtttctctcatctcacgcgcctccattttattatttccattacaatgaattatgaaatgcaaattttttttttttttttgttcgtttcagGTGTGGACACTGTAAAAGGCTTGCCCCGGAGTACGAACAGCTCGGAGCGAGTTTTAAGAAAACGAAGTCCGTTTTGATTGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA