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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACACTTTCCGAGGAAGAGTATGTGAATGCCCTATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcatttttcaaattcagataaattgctctgttctccactctacatatttatttcaagttttccaagactagtgaacctttcagtttaacttcca...

Basic information

species Glycine max
transcript GLYMA09G41070.3
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G41070.3 (Glycine max), 5'ss of exon 7
lower sequence: AT2G30290.2 (Arabidopsis thaliana), 5'ss of exon 8
GACACTTTCCGAGGAAGAGTATGTGAATGCCCTATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcatttttcaaattcagataaattgctctg----ttctccactctacatatttatttcaagttttccaagactagtgaacctttcagtttaacttcca
||||||||| |||||||||||||| |||| || |||||||||  ||| |||||| | || || || ||||| || ||||||||||||   | ||  ||| | || ||| ||| ||||     | ||  |  | | ||||   |||||  | ||     ||   || |  ||  ||           
GACACTTTCAGAGGAAGAGTATGTCAATGTCCCATTGTTCAAGGTGTCAAGTTTCTCGGTGACGGTTATACACATTGTGAAGgtaaaaaaagtt--caactacatatatatt-ctctaagattcctaaatccgatatataagtttcacatgttt----acatttggatattgtag-----------
















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|20812568|gb|BQ297046.1|BQ297046
EST:     TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAG                         CTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
genomic: TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcat ... ttcttaacagCTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
EST: gi|6724792|gb|AW309191.1|AW309191
EST:     TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAG                         CTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
genomic: TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcat ... ttcttaacagCTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
EST: gi|208177331|gb|GD973924.1|GD973924
EST:     AGTTTTTTGGAGATGGATATACCCACTGTGAAG                         CTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
genomic: AGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcat ... ttcttaacagCTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
EST: gi|51341493|gb|CO982810.1|CO982810
EST:     TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAG                         CTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
genomic: TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcat ... ttcttaacagCTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
EST: gi|207732297|gb|GD706272.1|GD706272
EST:     TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAG                         CTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGA
genomic: TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcat ... ttcttaacagCTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGA
EST: gi|16347036|gb|BI972631.1|BI972631
EST:     TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAG                         CTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
genomic: TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcat ... ttcttaacagCTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
EST: gi|10255066|gb|BE822832.1|BE822832
EST:     TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAG                         CTTCAGGATCNNNGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
genomic: TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcat ... ttcttaacagCTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
EST: gi|151407222|gb|EV277037.1|EV277037
EST:     TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAGG                         CTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG
genomic: TATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcat ... ttcttaacagCTTCAGGATCCCTGAGTTGTGAATTCAACAATGGTGGTTGTTGGAAGGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACACTTTCCGAGGAAGAGTATGTGAATGCCCTATTGTTCAAAATGTGAAGTTTTTTGGAGATGGATATACCCACTGTGAAGgtaaattcatttttcaaattcagataaattgctctgttctccactctacatatttatttcaagttttccaagactagtgaacctttcagtttaacttcca

- - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA