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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGCTGGAGATCGGCGAAGGACAGTTATGAGGCCTCCTCAAGTTCTTCGTGAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaatattttatgcaaaatgcttaatagtacaaagtaatgtgatgaaagttgtttcacaaaacacttgggcttgtttctgtcttttctctattt...

Basic information

species Glycine max
transcript GLYMA02G40310.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G40310.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv06s0004g08180.t01 (Vitis vinifera), 5'ss of exon 7
TAGCTGGAGATCGGCGAAGGACAGTTATGAGGCCTCCTCAAGTTCTTCGTGAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa--tattttatgcaaaatgcttaatagtacaaagtaatgtgatgaaagttgtttcac---aaaacacttgggcttgtttctgtcttttctctattt
| ||||||||| || | || |||||||||||||| || ||||| |||||||| ||||||||||||||||| ||||| || || |||||||| ||||| ||||||| | |   ||||||     |  |  || ||| || | | | |  |    | | || | |  |   |  |    ||   |||     |    ||   |    
TTGCTGGAGATAGGAGGAGAACAGTTATGAGGCCCCCACAAGTCCTTCGTGAAGGCACAAAGAAAACTGTTTTTGTGAACTTCATGGATCTGTGCAAGACgtatgctcatgttattttgcttcatctattttata-tatatatttaattagcaagatttctgttgctctagcaagactgtatttgcactggataatttcat----

upper sequence: GLYMA02G40310.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S81_161V6.1 (Physcomitrella patens), 5'ss of exon 3
TAGCTGGAGATCGGCGAAGGACAGTTATGAGGCCTCCTCAAGTTCTTCGTGAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaatattttatgcaaaatgcttaatagtacaaagtaatgtg---atgaaagttgtttcacaaaacacttgggcttgtttctgtcttttctctattt
|  ||   ||  || |  | ||  |||||||||||||||| ||||| || || || || || || ||||| |||||||| |||||||| || ||||| |||||| |    |  | |    | | || |    | |     ||  |||     ||| | | || |    |      |    |  |||   | | |    |    
TGTCTACGGAGAGGAGGCGTACCATTATGAGGCCTCCTCAGGTTCTCCGAGAAGGAACTAAAAAGACTGTCTTTGTCAACTTTATGGACCTTTGCAAGACgtatatactttcatctcctgagactgttctgcattgttttgttttgtttctgtgatactcgtatagtgagtattgtattttcatttaaatatgtagagtg---
















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|209719242|gb|BW679797.1|BW679797
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTTTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|192332834|gb|FK026835.1|FK026835
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|21479883|gb|BQ576566.1|BQ576566
EST:     GAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTTTTGCTTGCTGAATTGGG
genomic: GAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|151412916|gb|EV282728.1|EV282728
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|209728549|gb|BW663549.1|BW663549
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTTTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|254337821|gb|GR849560.1|GR849560
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|213611450|gb|DB976885.1|DB976885
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTTTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|58022083|gb|CX708824.1|CX708824
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|8827357|gb|BE211087.1|BE211087
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|214007895|gb|DB986470.1|DB986470
EST:     GGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTTTTGCTTGCTGAATTGGG
genomic: GGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|58020605|gb|CX707347.1|CX707347
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|254337820|gb|GR849559.1|GR849559
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
EST: gi|16347705|gb|BI973300.1|BI973300
EST:     GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAAC                         GATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG
genomic: GAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaa ... tcttatatagGATGCATCGGCAGCCAGACCATGTCATGGCTTTCTTGCTTGCTGAATTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGCTGGAGATCGGCGAAGGACAGTTATGAGGCCTCCTCAAGTTCTTCGTGAGGGCACAAAGAAAACTGTGTTTGTCAATTTTATGGATCTATGCAAAACgtatgtttaatattttatgcaaaatgcttaatagtacaaagtaatgtgatgaaagttgtttcacaaaacacttgggcttgtttctgtcttttctctattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA