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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTGCAATATTCACCTCTTTCTGTGGAGGTGCTGACATTGGTCAGGCAATAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatgtactaagtagttggacatgaaattttaaacaggaaacataattaaactaagtttaatgcatatacactgacggtataaaactgtcttaca...

Basic information

species Glycine max
transcript GLYMA09G08150.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G08150.2 (Glycine max), 5'ss of exon 7
lower sequence: AT1G54100.1 (Arabidopsis thaliana), 5'ss of exon 9
TGGTGCAATATTCACCTCTTTCTGTGGAGGTGCTGACATTGGTCAGGCAATAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatgtactaagtagttggacatgaaattttaaacaggaaacataattaaactaagtttaatgcatatacactgacggtataaaactgtcttaca
 ||||| || || ||  |  | ||||| |||||||| |||||| | |||||||| |||||||| ||||||||| | || || ||||||||||| || | ||||  |  |  ||||  || |    |    ||    | |||   | | ||  |   | |   ||      | |      |   |  | |           
CGGTGCCATTTTTACGGCCATGTGTGGTGGTGCTGAAATTGGTGAAGCAATAGCCAAAGACACACGCATTCCCTTAGTATCCTTTACTGGAAGCTCCAGGgtacttccttaacta--tattccacctcccaaccaaacacactgagccta-ctggtccatcattgtcttctctttgaatattatgcatag----------

upper sequence: GLYMA09G08150.2 (Glycine max), 5'ss of exon 7
lower sequence: Vv11s0016g00900.t01 (Vitis vinifera), 5'ss of exon 8
TGGTGCAATATTCACCTCTTTCTGTGGAGGTGCTGACATTGGTCAGGCAATAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatgtactaagtagttggacat-gaaattttaaacaggaaacataattaaactaagtttaatgcatatacactgacggtataaaactgtcttaca
 |||||||||||||||||||| |||||||||||||| |||||| | || ||| |||||||| |||||||||||||||||||||| ||||| ||||||||||||   |   |||  | | ||  |  || | ||||  |   | |  | ||    |   |   | || |    |||   |    | |       || |  | 
AGGTGCAATATTCACCTCTTTTTGTGGAGGTGCTGAAATTGGTGAAGCCATATCAAAAGACGCTCGCATTCCCCTGGTTTCATTCACTGGGAGTTCAAAGgtaccctgcttacatacttgtgcgctattggaattacatctatgtgagatgccaagtttttatctattcaccataatgtatgcggaccttttggtttgtc-
















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|193430892|gb|FK398136.1|FK398136
EST:     TAGCAAAAGACACCCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
EST: gi|193415066|gb|FK378822.1|FK378822
EST:     TAGCAAAAGACACCCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
EST: gi|14258546|gb|BG881454.1|BG881454
EST:     TAGCAAAAGACACCCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAA                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTT
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTT
EST: gi|193397845|gb|FK364187.1|FK364187
EST:     TAGCAAAAGACACCCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
EST: gi|254341577|gb|GR852714.1|GR852714
EST:     TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
EST: gi|208236818|gb|GE029296.1|GE029296
EST:     TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
EST: gi|19938590|gb|BQ081792.1|BQ081792
EST:     TAGCAAAAGACACCCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
EST: gi|6069735|gb|AW099357.1|AW099357
EST:     TAGCAAAAGACACCCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
EST: gi|208056617|gb|GD853792.1|GD853792
EST:     TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGT
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGT
EST: gi|27427065|gb|CA938585.1|CA938585
EST:     TAGCAAAAGACACCCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
EST: gi|4396268|gb|AI495265.1|AI495265
EST:     TAGCAAAAGACACCCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAG                         GTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG
genomic: TAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatg ... tgttatatagGTTGGCTTGATGGTCCAGCAAACAGTTAATGAGAGATTTGGCAAATGCTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGTGCAATATTCACCTCTTTCTGTGGAGGTGCTGACATTGGTCAGGCAATAGCAAAAGACACTCGCATTCCCCTGGTTTCATTTACTGGAAGTTCAAAGgtatgttatgtactaagtagttggacatgaaattttaaacaggaaacataattaaactaagtttaatgcatatacactgacggtataaaactgtcttaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG