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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCAAGAACCAAAAAAGATGACACAAATAATTGTAGATGCTTTGGAGATCACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggatatttctagttcatgttttcttgttggaatttagttttatgtttttttcaacaacataagtttcttcccag

Basic information

species Glycine max
transcript GLYMA18G28130.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G28130.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv07s0005g05600.t01 (Vitis vinifera), 5'ss of exon 10
GTTCAAGAACCAAAAAAGATGACACAAATAATTGTAGATGCTTTGGAGATCACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggat---------atttctagttcatgttttcttgttggaatttagt-tttatgtttttttcaacaacataa-gtttcttcccag-----------
|||||||||||| | || ||||| ||||||||||| |||||| ||||    |||||||||||||||||||| |||||||| ||||| || |||||||| ||||||  |         |||| || |   | || |  ||   | ||    | ||||  | ||| ||      |||   | |||   |||           
GTTCAAGAACCAGAGAAAATGACTCAAATAATTGTGGATGCTCTGGAAGAGACTGGACAGAGGGGCATCATTAATAAAGGCTGGGGTGGCCTTGGGAACTgtaagtttttcatttccatttttactctttattcttatgcaagtatgagctgtttaactctttctcccttctatattatctctattcaggcactgatttt
















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|15288220|gb|BI472111.1|BI472111
EST:     CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATT                         TGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGCCCTCATGATT
genomic: CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggatat ... ttcttcccagTGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGTCCTCATGATT
EST: gi|22525980|gb|BU084791.1|BU084791
EST:     GGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATT                         TGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGCCCTCATGATT
genomic: GGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggatat ... ttcttcccagTGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGTCCTCATGATT
EST: gi|9204101|gb|BE330325.1|BE330325
EST:     CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATN                         TGGCAGAACCAAAGGACTCTATATACTTATTGGATAATNGTNCTCATGATT
genomic: CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggatat ... ttcttcccagTGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGTCCTCATGATT
EST: gi|6566103|gb|AW233863.1|AW233863
EST:     CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATT                         TGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGTCCTCATGATT
genomic: CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggatat ... ttcttcccagTGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGTCCTCATGATT
EST: gi|51338437|gb|CO982303.1|CO982303
EST:     CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATT                         TGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGCCCTCATGATT
genomic: CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggatat ... ttcttcccagTGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGTCCTCATGATT
EST: gi|58017155|gb|CX703897.1|CX703897
EST:     CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATT                         TGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGTCCTCATGATT
genomic: CACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggatat ... ttcttcccagTGGCAGAACCAAAGGACTCTATATACTTATTGGATAATTGTCCTCATGATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCAAGAACCAAAAAAGATGACACAAATAATTGTAGATGCTTTGGAGATCACTGGACAGAGGGGCATCATCAATAAAGGATGGGGAGGTCTTGGGAATTgtaaggatatttctagttcatgttttcttgttggaatttagttttatgtttttttcaacaacataagtttcttcccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG