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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAAGAAGTGGCCACCGAGGTTTTGGGTTTGTCACCTTCGCTGATGAGGGTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgctggtgttccttgctgctgctaccttcgtatcaaatgtaaaacaaattatgttatattatttgtccttgtctggggggaaatgcagagttaaaagtattttctgctctttctttcag

Basic information

species Zea mays
transcript GRMZM2G030902_T02
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030902_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os01g71770.1 (Oryza sativa), 5'ss of exon 12
CAAAAGAAGTGGCCACCGAGGTTTTGGGTTTGTCACCTTCGCTGATGAGGGTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgctggtgt-tccttgctgctgctaccttcgtatcaaatgtaaaacaaattatgttatattatttgtccttgtctggggggaaatgcagagttaaaagtattttctgctctttctttcag
 ||||||||||| || ||||||||||| ||||||||||| |||||||||||||||||||| |||||| |||| ||||| ||||||||||| || ||||||||||||||| |||||| ||||||   ||||| ||   |  || || |  |||   |  |||| |   |  | |   || | |||||  ||    |    |||   ||   |     |  | ||||||
TAAAAGAAGTGGACATCGAGGTTTTGGTTTTGTCACCTTTGCTGATGAGGGTGTGGCAGATCGGGTAGCTCGCAGAAGTCATGAAATTCTAGGACATGAGgtaaggctgttggtgtctccttgtctctgcttcccatgcctccaaagccaaagtgacaatgtcaacct--tagcttttctttggggaaaagaaaaacactaatcataccattc---caatgtttcag
















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|31664298|gb|CD573023.1|CD573023
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|60400512|gb|DN233319.1|DN233319
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|4837587|gb|AI670677.1|AI670677
EST:     GTGTGGCAGAGCGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|31405984|gb|CD484716.1|CD484716
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|60356069|gb|DN223042.1|DN223042
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|60357001|gb|DN223974.1|DN223974
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|32847446|gb|CD987127.1|CD987127
EST:     GTGTGGCAGAACGGGTATCTCGTACAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCGCTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|110218916|gb|EC900814.1|EC900814
EST:     GTGTGGCAGAACGGGTATTTTGTAGAAGCCATGAAATTTTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|110532935|gb|EE037115.1|EE037115
EST:     GTGTGGCAGAACGGGTATCTTGTAGAAGCCATGAAATTTTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|32912299|gb|CF017111.1|CF017111
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTTTATTAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|149096473|gb|EE182215.2|EE182215
EST:     GTGTGGCAGAACGGGTATCTTGTAGAAGCCATGAAATTTTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|211425320|gb|FL461581.1|FL461581
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|37375908|gb|CF624436.1|CF624436
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|71304924|gb|DR788592.1|DR788592
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|33103241|gb|CF063201.1|CF063201
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|60338462|gb|DN205435.1|DN205435
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|211096440|gb|FL454801.1|FL454801
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         TTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|32938473|gb|CF043292.1|CF043292
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|33098312|gb|CF058272.1|CF058272
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|211440740|gb|FL468428.1|FL468428
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTYTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|8666086|gb|BE186902.1|BE186902
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|60343320|gb|DN210293.1|DN210293
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
EST: gi|32911368|gb|CF016180.1|CF016180
EST:     GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAG                         GTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT
genomic: GTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgc ... tttctttcagGTTGCAATAGACACAGCTGCACCACTTGAGAATGATTCAGCTGGTGGTGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAAAGAAGTGGCCACCGAGGTTTTGGGTTTGTCACCTTCGCTGATGAGGGTGTGGCAGAACGGGTATCTCGTAGAAGCCATGAAATTCTGGGCCATGAGgtaaggctgctggtgttccttgctgctgctaccttcgtatcaaatgtaaaacaaattatgttatattatttgtccttgtctggggggaaatgcagagttaaaagtattttctgctctttctttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC