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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGTCATGGCTGTTTTTGCGTACATCTATTACCAATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctgggtttgccatacctgtgactaaatttagttcctttgctccataacgatatctagttgctaaacagcagcatacctttcaatgcag

Basic information

species Zea mays
transcript GRMZM2G062416_T03
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G062416_T03 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os10g17990.1 (Oryza sativa), 5'ss of exon 11
ATGGTCATGGCTGTTTTTGCGTACATCTATTACCAATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctgggtttgccatacctgtgactaaatttagttcctttgctccataacgatatctagttgctaaacagcagcatacctttcaatgcag
||||| |||||||| ||||| || |||||||||||||| ||||| |||||||||||||||||||||||||||||| ||||||||||| | | |  |       | |  ||||    ||| |  | |||     |||   || |  |   || ||     ||||   | | |||||||
ATGGTTATGGCTGTGTTTGCTTATATCTATTACCAATCGTTTGTGATGGTACAGGACTTATCTGTTGAGACAATCATGGAGCAGgtacttttgactc------ctttcgacttgcatta-tatcattgtgaattaaatgtaacctgacccttaat----gcatttatgt-aatgcag
















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|71429076|gb|DR810126.1|DR810126
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|78105508|gb|DV523926.1|DV523926
EST:     TCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: TCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|211157823|gb|FL476882.1|FL476882
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|71770625|gb|DR968562.1|DR968562
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|211031482|gb|FL468605.1|FL468605
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|113832668|gb|DW950426.1|DW950426
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATA
EST: gi|32908945|gb|CF013758.1|CF013758
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|33097224|gb|CF057184.1|CF057184
EST:     GTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: GTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|71324038|gb|DR798706.1|DR798706
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|71770099|gb|DR968036.1|DR968036
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
EST: gi|78074248|gb|DV502682.1|DV502682
EST:     AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAG                         ATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA
genomic: AATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctggg ... ttcaatgcagATACTACGTAATCTCACCTTTGAGGAGCAGCGTGAGCTATATGGACAGCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGTCATGGCTGTTTTTGCGTACATCTATTACCAATCATTTGTAATGGTACAGGACTTATCTGTTGAGACAATCCTGGAGCAGgtaatctgggtttgccatacctgtgactaaatttagttcctttgctccataacgatatctagttgctaaacagcagcatacctttcaatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG