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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAATCGATGGGTTAAATCAGATTGGAAAAAAGATGAGAACGTGGCTGGGGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaattgctatgttgaatagtcgggtattatactattattgttgctcatgtttacttttgtttaaaattgatattaagatatgtttggttgaatgttgatatctctgcag

Basic information

species Glycine max
transcript GLYMA10G28890.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G28890.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os07g14270.2 (Oryza sativa), 5'ss of exon 2
GAAAATCGATGGGTTAAATCAGATTGGAAAAAAGATGAGAACGTGGCTGGGGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaattgcta-tgttgaatagtcgggtattatactattattgttgctcatgtttacttttgtttaaaattgatattaagatatgtttggttgaatgttgatatctctgcag
|||| ||| ||||| || ||||| ||||| || ||||||||| ||||||| || ||||||||||| |||||  | |||||||||||  || | |||||||||||| |  |     | |       | || |  | ||    || ||| || || |  | |  || |  ||  |                                            
GAAAGTCGGTGGGTCAAGTCAGAATGGAAGAAGGATGAGAACATGGCTGGTGAATGGAACCACACATCTGGGAAGTGGAATGGAGATCCTGAGGACAAAGgtaaattggaagatcaatacacctcattcagacactaacagatgatttttactgaattatttttcttgttgcag-------------------------------------------

upper sequence: GLYMA10G28890.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G358059_T01 (Zea mays), 5'ss of exon 2
GAAAATCGATGGGTTAAATCAGATTGGAAAAAAGATGAGAACGTGGCTGGGGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaattgctatgttgaatagtcgggtattatactattatt-gttgctcatgtttacttttgtttaaaattgatattaagatatgtttggttgaatgttgatatctctgcag
|||| ||| ||||| || || || ||||| || ||||||||| ||||||| || |||||||||||||| ||  ||||||||||||| ||  | |||||||||||| |  |   |        || |  || |    |    ||||  ||| ||||       | |||||  |                                             
GAAAGTCGGTGGGTCAAGTCCGAGTGGAAGAAGGATGAGAACATGGCTGGTGAATGGAACCACACCTCGGGAAAATGGAATGGAGATGCCGAGGACAAAGgtaaattccaaaacatcagaagattggtggtttcagtttatttatgagttactcaacacgtttcttgttgcag--------------------------------------------

upper sequence: GLYMA10G28890.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G074687_T01 (Zea mays), 5'ss of exon 2
GAAAATCGATGGGTTAAATCAGATTGGAAAAAAGATGAGAACGTGGCTGGGGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaattgctatgttgaatagtcgggtattatactattattgttgctcatgtttacttttgtttaaaattgatattaagatatgtttggttgaatgttgatatctctgcag
|||| ||| ||||| || || || |||||||| || || ||| ||||||| || |||||||||||||| ||  ||||||||||||| ||  | ||||||||| || | ||     | ||   |     ||  |||  | | |||||  |    | ||||  | |||                                                  
GAAAGTCGGTGGGTCAAGTCCGAGTGGAAAAAGGACGATAACATGGCTGGTGAATGGAACCACACCTCGGGGAAATGGAATGGAGATGCAGAGGACAAAGgttaattcaaa----acgtcagaagaatggtgatttcagt-ttattagttaatacgtttcatgttgcag-----------------------------------------------

upper sequence: GLYMA10G28890.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0060g01290.t01 (Vitis vinifera), 5'ss of exon 2
GAAAATCGATGGGTTAAATCAGATTGGAAAAAAGATGAGAACGTGGCTGGGGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaattgctatgttgaatagtcgggtattatactattattgttgctcatgtttacttttgtttaaaattgatattaagatatgt---ttggttgaatgttgatatctctgcag----
|| |||   ||||||||||| || ||||| |||||||||||| |||||||||| |||||| ||||||||||| ||||| |||||||| | ||||| |||||||       ||  | |  |  | | ||   ||     |||||   |    |  |   | || ||  ||||  | ||  || | || |||   ||| ||  |  |  ||   |||| |     
GAGAATAAGTGGGTTAAATCCGAATGGAAGAAAGATGAGAACATGGCTGGGGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgta-------ttattttcatacacattcttatac----ctatttggggcaatgtttcattctctttattaatttggactttgaaatgtgtaacttgatttgacttcaatgg-tctggatatag

upper sequence: GLYMA10G28890.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv07s0005g01390.t01 (Vitis vinifera), 5'ss of exon 2
GAAAATCGATGGGTTAAATCAGATTGGAAAAAAGATGAGAACGTGGCTGGGGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaa--attgctatgttgaatagtcgggtattat-actattattg--ttgctcatgtttacttttgtttaaaattgatattaagatatgtttggttgaatgttgatatctctgcag------------------------------
||  |||||||||||  ||| |||||||| |||||||||||| |||| ||| | |||||| |||| |||||  |||||| ||| ||| | ||||| |||||||  |||   ||   |||  ||  |   |    |  |  || |  | ||  |||       || ||| |||||||   |  |  |   |  |||    ||   | || | |  | | |||                              
GAGGATCGATGGGTTGTATCTGATTGGAAGAAAGATGAGAACTTGGCAGGGCAATGGAACTACACTTCTGGGAAATGGAGTGGGGACCCGAATGATAAAGgtatgctatccatcattatactgtctgtacattaacaaagacgaaaagtgctttgagacctcttgcttctgtttaagggttctcatttcaggtgtgattttccttattaagagtttt-cagactacttatatggtttgaatctgggtccag

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|208120804|gb|GD916091.1|GD916091
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193314617|gb|FK278317.1|FK278317
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193312975|gb|FK279588.1|FK279588
EST:     CGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: CGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193369196|gb|FK337088.1|FK337088
EST:     AACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: AACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|207766394|gb|GD738722.1|GD738722
EST:     AACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: AACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193438767|gb|FK410290.1|FK410290
EST:     GACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|18692974|gb|BM521822.1|BM521822
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193336224|gb|FK297648.1|FK297648
EST:     GAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193618194|gb|FK570736.1|FK570736
EST:     TGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: TGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193470031|gb|FK436812.1|FK436812
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGACTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|207729098|gb|GD704866.1|GD704866
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|208085877|gb|GD882453.1|GD882453
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193472464|gb|FK438657.1|FK438657
EST:     ATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: ATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|8827255|gb|BE210985.1|BE210985
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|208225556|gb|GE025807.1|GE025807
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATG
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATG
EST: gi|120492727|gb|EH220894.1|EH220894
EST:     ATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: ATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193611312|gb|FK564972.1|FK564972
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193570973|gb|FK528550.1|FK528550
EST:     GGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|207807326|gb|GD779369.1|GD779369
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193455403|gb|FK419296.1|FK419296
EST:     AACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: AACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|208122609|gb|GD924953.1|GD924953
EST:     TGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: TGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|192334620|gb|FK025195.1|FK025195
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193336354|gb|FK298128.1|FK298128
EST:     GTAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: G-AGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193408218|gb|FK374952.1|FK374952
EST:     TGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: TGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|120493122|gb|EH221289.1|EH221289
EST:     AATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: AATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|208192900|gb|GD988383.1|GD988383
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|208294355|gb|GE092172.1|GE092172
EST:     GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: GGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
EST: gi|193707724|gb|FK646820.1|FK646820
EST:     ACGCTAATGACAAAG                         GTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC
genomic: ACGCTAATGACAAAGgtaaactaaa ... atctctgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAATCGATGGGTTAAATCAGATTGGAAAAAAGATGAGAACGTGGCTGGGGAGTGGAACCACACCTCTGGTCAATGGAATGGAGACGCTAATGACAAAGgtaaactaaattgctatgttgaatagtcgggtattatactattattgttgctcatgtttacttttgtttaaaattgatattaagatatgtttggttgaatgttgatatctctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA