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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGACGGAAGTAACATGGGAAGACCAGCAGAACATCAACAAATTCGGAAGGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctattcaaccctttcattccactcgtgtttagtgtattatgcacacagaacattagggcatgcacaaattatatttacttcttgtttagttatat...

Basic information

species Glycine max
transcript GLYMA10G30520.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G30520.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0081g00080.t01 (Vitis vinifera), 5'ss of exon 2
TGAGACGGAAGTAACATGGGAAGACCAGCAGAACATCAACAAATTCGGAAGGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctattcaaccctttcattccactcgtgtttagtgtattatgcacacagaacattagggcatgcacaaattatatttacttcttgtttagttatat-
||| || || || |||||||| || ||||||||||| ||||||||||||||  | || ||  | ||||||||||| || ||||||||||| || || |||||| |  |   ||                || |||  | |   ||  |         |||     |  | || ||   | ||||| ||   |   | | | 
TGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAACAAATTCGGAAGACTAAACAACAGATTTCACGAGCTCGAAGATGAGATCAAGATGGCCAAGgtaataaagaaaaaagaaaggacttttctgt-tttccttttcgatctatgatttttgttaattttttaaaaatttggttctactttttaactgtgttttta

upper sequence: GLYMA10G30520.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S341_64V6.1 (Physcomitrella patens), 5'ss of exon 2
TGAGACGGAAGTAACATGGGAAGACCAGCAGAACATCAACAAATTCGGAAGGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtatt-----ctattcaaccctttcattccac---tcgtgtttagtgtattatgcacacagaacattagggcatgcacaaattatatttacttcttgtttagttatat
 ||||||||||| |||||||||||||||||||| || ||    |||||  |  | |||||    ||||| || |||||||| ||||| ||       ||||||||      |||| ||||||   ||   ||   | ||  | |    || | | || ||  | |  |    |  || | |  ||   |  ||||  ||| ||     
AGAGACGGAAGTGACATGGGAAGACCAGCAGAATATTAATGCCTTCGGTCGTCTCAATAACAAGTTTCATGAACTTGAGGACGAGATTAAGGCGAAGAAGgtattgcttattattaaaccctaaaatgttacatattgtactcaaca-atcacgaactcattaga--aaattagtcaaacaacatggctggttctaattttgt-----
















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|298165379|gb|HO011428.1|HO011428
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|298183639|gb|HO028852.1|HO028852
EST:     GGTTGAGTAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|208047066|gb|GD846067.1|GD846067
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|23063883|gb|BU578665.1|BU578665
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGTATTCTCACAGA
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTG-ATTCTCACAGA
EST: gi|8403847|gb|BE059481.1|BE059481
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|298194434|gb|HO041082.1|HO041082
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|298189349|gb|HO037752.1|HO037752
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAGCGAGTTGATTCTCA
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCA
EST: gi|208180338|gb|GD977589.1|GD977589
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|151408749|gb|EV278557.1|EV278557
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|298181905|gb|HO026080.1|HO026080
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|208288067|gb|GE083926.1|GE083926
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAG
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAG
EST: gi|192325157|gb|FK019088.1|FK019088
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATC-AAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|9985019|gb|BE659127.1|BE659127
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|207715080|gb|GD695158.1|GD695158
EST:     CTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: CTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|298195641|gb|HO044032.1|HO044032
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|193429684|gb|FK394548.1|FK394548
EST:     ATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: ATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|192331578|gb|FK022767.1|FK022767
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|151396928|gb|EV266801.1|EV266801
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|208063826|gb|GD861980.1|GD861980
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|193342528|gb|FK306788.1|FK306788
EST:     GTTGAATAATCGCTTTCACGAGCTTGAGGATGGAGATCAAAATCGCAAAG                         GAAACAAATGATAAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGA
genomic: GTTGAATAATCGCTTTCACGAGCTTGAGGATG-AGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAA-TTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGA
EST: gi|192298490|gb|FG989196.1|FG989196
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTCGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|151411474|gb|EV281285.1|EV281285
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|192294153|gb|FG986242.1|FG986242
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|192323134|gb|FK016325.1|FK016325
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|298187726|gb|HO031683.1|HO031683
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|208228031|gb|GE025985.1|GE025985
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGAT
EST: gi|208131225|gb|GD931112.1|GD931112
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACG
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACG
EST: gi|10847424|gb|BF070111.1|BF070111
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|192326352|gb|FK015884.1|FK015884
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|298182302|gb|HO026477.1|HO026477
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|193703268|gb|FK636466.1|FK636466
EST:     TTGAATAATCGCTTTCACGAGCTTAGAAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: TTGAATAATCGCTTTCACGAGCTT-GA-GGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|193532194|gb|FK490152.1|FK490152
EST:     TTGAATAATCGCTTTCACGAGCTTAGAAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: TTGAATAATCGCTTTCACGAGCTT-GA-GGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|6952039|gb|AW424107.1|AW424107
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
EST: gi|192295132|gb|FG986851.1|FG986851
EST:     GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAG                         GAAACAAACGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT
genomic: GGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctatt ... atctttgtagGAAACAAATGATAATTTGGAGGATGCAAGCAACGAGTTGATTCTCACAGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGACGGAAGTAACATGGGAAGACCAGCAGAACATCAACAAATTCGGAAGGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCAAAATCGCAAAGgtattctattcaaccctttcattccactcgtgtttagtgtattatgcacacagaacattagggcatgcacaaattatatttacttcttgtttagttatat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctttc