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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactcgcaacagtgatcatattataagtgtacaacagttgttactctatacaacagttctctctctatatattttgaattccctgtgctaagggatttgaagattaggttaactatatatatatatatatattactttgattccag

Basic information

species Zea mays
transcript GRMZM2G068277_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G068277_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os02g02690.1 (Oryza sativa), 5'ss of exon 9
GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactcgcaacagtgatcatattata--agtgtacaacagttgttactctatacaacagttctctctctatatatt----ttgaattccctg-tgctaagggatttgaagattaggttaactatatatatatatatatattactttgattccag
||||||||||||||||| |||||||| |||||||| |||||||||||||||||| ||||||||||||  ||| |   |  |||  || |  |    | ||| | | ||| | | |||     |   |    |   | ||    |||| ||   || |  | || |||  ||  |    |  |  ||  ||  ||| | | | |||   || ||| ||
GATGATCTGAAGAAGACTTGGCTTATTAAAAGGTGCCGGACAATGAATGCTAAATTAAGgttggtacctgcatctacgtccatcatacatcacctaataacggatcttaatttgtactttgttaaacatagttagtcttctaattgagttatttgctagtcagcgatgggacaaaacag--agttaattaactatttctttcttaacatggttctag
















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|211432853|gb|FL453388.1|FL453388
EST:     GACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: GACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|60400409|gb|DN233216.1|DN233216
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|211359393|gb|FL440514.1|FL440514
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|71428336|gb|DR809386.1|DR809386
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|60401584|gb|DN234391.1|DN234391
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|76281959|gb|DV021527.1|DV021527
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|71443221|gb|DR824271.1|DR824271
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|78122195|gb|DV540579.1|DV540579
EST:     CAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: CAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|211426623|gb|FL412861.1|FL412861
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|5895704|gb|AW036950.1|AW036950
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTACGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|50331676|gb|CO526802.1|CO526802
EST:     ATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: ATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|110488821|gb|EE012728.1|EE012728
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|45568053|gb|CK985878.1|CK985878
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|148948940|gb|EC894359.2|EC894359
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|110504829|gb|EE017437.1|EE017437
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAATTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|60347346|gb|DN214319.1|DN214319
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|50324448|gb|CO519574.1|CO519574
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATTTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|211359065|gb|FL430712.1|FL430712
EST:     GTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: GTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|44900277|gb|CK826822.1|CK826822
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
EST: gi|74237081|gb|DT644995.1|DT644995
EST:     AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAG                         CTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC
genomic: AAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactc ... ttgattccagCTATCTGGAGCATCATCTATTGCGTGACACTTACACCAAGGACACAGTACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCTAAACTAAGgttggtactcgcaacagtgatcatattataagtgtacaacagttgttactctatacaacagttctctctctatatattttgaattccctgtgctaagggatttgaagattaggttaactatatatatatatatatattactttgattccag

- - - -  AAGAAG