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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctggatcccgtcccatcgacgcttttttttctttctttcttcctttctttccgccctttgccgctcgcaaggatctctcgtgggctaccagcttcaaaaatctcacctattttttttcttaccctcttcaatcaaatcaacaaggtaaaaaatctcatctctctaccggcttgctatgcttgtttttctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAGCTCCTGCAGGCCGGCGCCAAT

Basic information

species Zea mays
transcript GRMZM2G069162_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069162_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g02130.1 (Oryza sativa), 3'ss of exon 2
gtgctggatcccgtcccatcgacgcttttttttctttctttcttcctttctttccgccctttgccgctcgcaaggatctctcgtgggctaccagcttcaaaaatctcacctattttttttcttaccctcttcaatcaaatcaacaaggtaaaaaatctcatctctctaccggcttgctatgcttgtttttctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAGCTCCTGCAGGCCGGCGCCAAT
||||  ||||||  || |   |    | || || |||  | ||   ||||      |   |  | ||| | ||  |||     | |  |   |     ||| |        |  | |  ||||  ||| ||   |                    ||||| ||  ||      ||||| | ||| |  || |   | ||||||||||||||||||||||| ||||||||||||| |||||||||||| |||||||| ||||||| ||| |||
gtgcgagatccccaccaa--aatctctcttcttttttgctactgtttttcgaattactagtatctgcttgaaaatatcatattttgattttgaatgaaaaagaa-------agatctcgtcttgtccttttgttt--------------------tctcaccttgct------ttgctcttcttctgcttatgc-tgcagACGCCGCTGATGCTCGCGGCCATGCACGGCAAGATCGACTGCGTGCTCAAGCTCCTCCAGGCCGACGCAAAT
















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|211326970|gb|FL003075.1|FL003075
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|91049871|gb|EB160289.1|EB160289
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|89761791|gb|DY689663.1|DY689663
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|71449368|gb|DR830418.1|DR830418
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|149071938|gb|EE160325.2|EE160325
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|149037744|gb|EE155406.2|EE155406
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|78089777|gb|DV518151.1|DV518151
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|91054246|gb|EB164664.1|EB164664
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|149096259|gb|EE181967.2|EE181967
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|149113145|gb|EE295904.2|EE295904
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|148953967|gb|EC899355.2|EC899355
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|149078678|gb|EE167469.2|EE167469
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|71449909|gb|DR830959.1|DR830959
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|148949274|gb|EC894718.2|EC894718
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|148938650|gb|EC882982.2|EC882982
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|148966812|gb|EE017914.2|EE017914
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|94472171|gb|EB701129.1|EB701129
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|76284670|gb|DV024238.1|DV024238
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|74232733|gb|DT640647.1|DT640647
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|50325257|gb|CO520383.1|CO520383
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|149085919|gb|EE175447.2|EE175447
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|91876743|gb|EB406700.1|EB406700
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|211331298|gb|FL003101.1|FL003101
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|148982960|gb|EE028846.2|EE028846
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|33466680|gb|CF243729.1|CF243729
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|93012277|gb|EB637797.1|EB637797
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|91873603|gb|EB403560.1|EB403560
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|50323631|gb|CO518757.1|CO518757
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTAAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
EST: gi|93283971|gb|EB676235.1|EB676235
EST:     TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAG                         ACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG
genomic: TGGTCTTGGATCACGGGGTGCCGCCGGACGTGGTGAATCGGCACAAGCAGgtgctggatc ... ctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtaaaaaatctcatctctctaccggcttgctatgcttgtttttctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAGCTCCTGCAGGCCGGCGCCAAT
                                    cttgtttttctctgtc  CT-rich tract
     aaaaatct  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgctggatcccgtcccatcgacgcttttttttctttctttcttcctttctttccgccctttgccgctcgcaaggatctctcgtgggctaccagcttcaaaaatctcacctattttttttcttaccctcttcaatcaaatcaacaaggtaaaaaatctcatctctctaccggcttgctatgcttgtttttctctgtccagACGCCGCTGATGCTCGCGGCGATGCACGGCAAGACCGACTGCGTGCTGAAGCTCCTGCAGGCCGGCGCCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG