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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGCTGGGGCTGCAGCTCTCGGCGCTGATCGACCACGTCGCGCGCGTCGACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttccttctccttccttccttcctccctccatccacgcgcaacacggccgtgttagttataattcgcttcgcttctactgttccatgtccaatcgtc...

Basic information

species Zea mays
transcript GRMZM2G051842_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G051842_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os01g01620.1 (Oryza sativa), 5'ss of exon 1
GGTGCTGGGGCTGCAGCTCTCGGCGCTGATCGACCACGTCGCGCGCGTCGACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttccttctccttccttccttcctccctccatccacg-cgcaacacggccgtgttagt-tataattcgcttcgcttctactgttccatgtccaatcgtc--
||||||||| |||||||| |||||||| |||||||||||||||||||||||||||||||||||| ||||| |||| |||||||||||||| || |||||||| | |||| ||||   || || | |  |   ||  ||     || | |       ||  | | ||| |  ||     |||| ||||   ||  |  ||     
GGTGCTGGGCCTGCAGCTGTCGGCGCTCATCGACCACGTCGCGCGCGTCGACTGGTCCCTCCTCAACCGCATCCCCGGCGACCGCGGCGGTTCACAGCAGgtacctcctcctcc---ctaccatacaactaacacgcataattcacctcaatttctttgctctgtaactgtctgtaactcta-tgttaattgatccttctgaat
















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|211494759|gb|FL095205.1|FL095205
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|28873329|gb|CB329332.1|CB329332
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|71446345|gb|DR827395.1|DR827395
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211497636|gb|FL095208.1|FL095208
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494757|gb|FL095203.1|FL095203
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494752|gb|FL095198.1|FL095198
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGNTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211497635|gb|FL095207.1|FL095207
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|91057161|gb|EB167579.1|EB167579
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494747|gb|FL095193.1|FL095193
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494745|gb|FL095191.1|FL095191
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|29543850|gb|CB604230.1|CB604230
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|76293563|gb|DV033131.1|DV033131
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211497634|gb|FL095206.1|FL095206
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|76286678|gb|DV026246.1|DV026246
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|71771409|gb|DR969346.1|DR969346
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|37423776|gb|CF649617.1|CF649617
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494750|gb|FL095196.1|FL095196
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211491870|gb|FL095186.1|FL095186
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494751|gb|FL095197.1|FL095197
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|29946564|gb|CB816213.1|CB816213
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|148987163|gb|EE030992.2|EE030992
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|71447665|gb|DR828715.1|DR828715
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|37425242|gb|CF650359.1|CF650359
EST:     ACTGGTCCCTCCTCGACCGCGTNCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|101385267|gb|EB814679.1|EB814679
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|37423890|gb|CF649675.1|CF649675
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494758|gb|FL095204.1|FL095204
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494755|gb|FL095201.1|FL095201
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494754|gb|FL095200.1|FL095200
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211491872|gb|FL095188.1|FL095188
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|28569018|gb|CB280893.1|CB280893
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494756|gb|FL095202.1|FL095202
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|28361854|gb|CB240210.1|CB240210
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|29946829|gb|CB816346.1|CB816346
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|149088934|gb|EE178077.2|EE178077
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|148959742|gb|EC905640.2|EC905640
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|31612068|gb|CD568690.1|CD568690
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494748|gb|FL095194.1|FL095194
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
EST: gi|211494753|gb|FL095199.1|FL095199
EST:     ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAG                         GTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC
genomic: ACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttcctt ... ctgtttacagGTGTCCATTGTGGAGTTGAATCATATTCTTAATGAAGTGAATACCCACATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGCTGGGGCTGCAGCTCTCGGCGCTGATCGACCACGTCGCGCGCGTCGACTGGTCCCTCCTCGACCGCGTCCCTGGCGACCGCGGCGGCTCGCAGCAGgtgcttccttctccttccttccttcctccctccatccacgcgcaacacggccgtgttagttataattcgcttcgcttctactgttccatgtccaatcgtc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC