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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgtcaattcattttcttttttgggtggaaaacaaaaaaaaatattaaaattaaacacctgacatgtgttgcattcccacttcag

Basic information

species Glycine max
transcript GLYMA08G21300.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G21300.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv09s0002g02940.t01 (Vitis vinifera), 5'ss of exon 6
GGGACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgtcaattcattttcttttttgggtggaaaacaaaaaaaaa-tattaaaattaaacacctgacatgtgttgcattcccacttcag
|||||| |||||||||||| ||    |||||||||||||||||||| ||||||||    || ||  |  | ||  | ||   |  | || | |   ||  | ||||  ||| | |    ||   | | |     ||    | |||
GGGACACATTCCCTGTTGGGTGTGCTTTTGATGAGTCCATTGTTCATCACAAGgttggcct-tctttcaagttcatattactgaagaaacatatccaattactattttaatcatatttatggtttttatgatgctc----tgcag
















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|192304442|gb|FG997856.1|FG997856
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|17022499|gb|BM093533.1|BM093533
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|58015895|gb|CX702637.1|CX702637
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|151397267|gb|EV267140.1|EV267140
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|14991768|gb|BI317441.1|BI317441
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|14991788|gb|BI317461.1|BI317461
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|17023853|gb|BM094887.1|BM094887
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|151396455|gb|EV266332.1|EV266332
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|163921518|gb|EH039303.1|EH039303
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAATATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|58016178|gb|CX702920.1|CX702920
EST:     ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: ACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
EST: gi|163926148|gb|EH038402.1|EH038402
EST:     TGGTTGCAGATTTGATGAGTCCATTGGTTCACCACAAG                         TATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT
genomic: TGGTTGCAGATTTGATGAGTCCATT-GTTCACCACAAGgtaaatctgt ... cccacttcagTATTTTAAGGAAAATCCAGACTACAACAATCCAGCATACAACACTAAATAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGACATATTCCCTGTTGGTTGCAGATTTGATGAGTCCATTGTTCACCACAAGgtaaatctgtcaattcattttcttttttgggtggaaaacaaaaaaaaatattaaaattaaacacctgacatgtgttgcattcccacttcag

- - - - - - - - - -  GCAGAT