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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAAATGTTGTGCCGCTTCGTGCTTATTATTATTCAAAAGATGAAAAACTTTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcatttcttttacttagtttctgattttctgttaaatattcaaaattctaaaattaaacttgttttcttttatcccttgtgtgggcttgttttatt...

Basic information

species Glycine max
transcript GLYMA18G05740.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G05740.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0004g08210.t01 (Vitis vinifera), 5'ss of exon 1
ACAAATGTTGTGCCGCTTCGTGCTTATTATTATTCAAAAGATGAAAAACTTTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcatttcttttacttagtttctgattttctgttaaatattcaaaattctaaaattaaacttgttttcttttatcccttgtgtgggcttgttttatt---
 ||||||||||||| || |||||||||||||| || || ||||| || ||  |||| |||||||||||| | ||||||| | ||    |||| ||||| |||||||||||  | |||||   ||    || |    |||  | ||||   || |||   |  ||   |     | ||      ||   ||| ||  || |   
CCAAATGTTGTGCCACTCCGTGCTTATTATTACTCCAAGGATGAGAAGCTCCTGGTTTATGACTATGTCTCAGGTGGCAGCTTATCGGCACTGTTGCATGgtatgcattt--tctacttccctttaccttctagcataatcagtcaagcatcaaaaggaactctgaatgatcatcatggtaactgatagct-gtaatacttct
















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|208027716|gb|GD823650.1|GD823650
EST:     TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACG                         GTGGTAAGGACAGGTGGAAGAACTCCATTAGACTGGG
genomic: TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcattt ... ttgattgcagGTGGTA-GGACAGGTGGAAGAACTCCATTAGACTGGG
EST: gi|23728294|gb|BU762195.1|BU762195
EST:     TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACG                         GTGGTAGGACAGGTGGAAGAACTCCATTAGACTGGGACTCTCGAATAAAAA
genomic: TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcattt ... ttgattgcagGTGGTAGGACAGGTGGAAGAACTCCATTAGACTGGGACTCTCGAATAAAAA
EST: gi|207681293|gb|GD663832.1|GD663832
EST:     TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACG                         GTGGTAGGACAGGTGGAAGAA
genomic: TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcattt ... ttgattgcagGTGGTAGGACAGGTGGAAGAA
EST: gi|193514669|gb|FK469263.1|FK469263
EST:     TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACG                         GTGGTAGGACAGGTGGAAGAACTCCATTAGACTGGGACTCTCGAATAAAAA
genomic: TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcattt ... ttgattgcagGTGGTAGGACAGGTGGAAGAACTCCATTAGACTGGGACTCTCGAATAAAAA
EST: gi|207681100|gb|GD661847.1|GD661847
EST:     TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACG                         GTAGGTAAGGACAGGTGGAAGAACTCCATTAGACTGGG
genomic: TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcattt ... ttgattgcagGT-GGTA-GGACAGGTGGAAGAACTCCATTAGACTGGG
EST: gi|193501029|gb|FK465022.1|FK465022
EST:     TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACG                         GTGGTAGGACAGGTGGAAGAACTCCATTAGACTGGGACTCTCGAATAAAAA
genomic: TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcattt ... ttgattgcagGTGGTAGGACAGGTGGAAGAACTCCATTAGACTGGGACTCTCGAATAAAAA
EST: gi|207681435|gb|GD661454.1|GD661454
EST:     TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACG                         GTGGTAAGGACAGGTGGAAGAACTCCATTAGACTGGG
genomic: TTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcattt ... ttgattgcagGTGGTA-GGACAGGTGGAAGAACTCCATTAGACTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAAATGTTGTGCCGCTTCGTGCTTATTATTATTCAAAAGATGAAAAACTTTTGGTATATGACTATGTCCCTGGTGGCAACCTACACACACTCTTGCACGgtatgcatttcttttacttagtttctgattttctgttaaatattcaaaattctaaaattaaacttgttttcttttatcccttgtgtgggcttgttttatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtggg