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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCATGGCAAGTGTCCCGCCACCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttcttcggtatgctaacaagctgtcgcaacaaaattttcagtagcatgtggtgtggactgtagagtatcagtagccattttgtgtcttgctct...

Basic information

species Zea mays
transcript GRMZM2G324540_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G324540_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g32880.1 (Oryza sativa), 5'ss of exon 1
---------GACCATGGCAAGTGTCCCGCCACCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttcttcggtatgctaacaa----gctgtcgcaacaaaattttcagtagcatgtggtgtggact-------gtagagtatcagtagccattttgtgtcttgctct--------------------------------------------------------
         |||||||| ||||| || | |||||||||||| ||||||||||| || |||||| |||| |||||||||| |||| || |||   || ||||| | ||      ||| |      |   ||||| ||| ||||| ||||| |       ||   |||  |||| |   |  |||   | |  |                                                        
ATGGCGCAGGACCATGGGAAGTGCCCAGTCACCAAGGAGGAGCTCACCATGGACGACATCGTGGCGGTGAAGACCAACAAGgtaaggcttcgctggaatgctgagaaaattattgtggagtggcaggcttcagcagcgtgtggcgtggatttacctatgttttgtacaagtaactgatg-gtgctataccttttagctgaaaaacttgcataatcctcaaggcctcaatcatgttatactatttgcag
















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|211231050|gb|FL343816.1|FL343816
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211104072|gb|FL353160.1|FL353160
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211270237|gb|FL344649.1|FL344649
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211156212|gb|FL365662.1|FL365662
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211262703|gb|FL336157.1|FL336157
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTG
EST: gi|211089285|gb|FL354017.1|FL354017
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211206059|gb|FL353696.1|FL353696
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCCAGGACTCCTTGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCC-AGGACTCCTTGG
EST: gi|211228973|gb|FL343790.1|FL343790
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211232319|gb|FK959916.1|FK959916
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211040670|gb|FL334591.1|FL334591
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211158673|gb|FL319015.1|FL319015
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211165501|gb|FL341377.1|FL341377
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211227097|gb|FL350438.1|FL350438
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCCTTGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCC-TTGG
EST: gi|211108070|gb|FL361613.1|FL361613
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211411946|gb|FL334072.1|FL334072
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCC
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCC
EST: gi|211399607|gb|FL346420.1|FL346420
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211444525|gb|FL325223.1|FL325223
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211050070|gb|FL348912.1|FL348912
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|9254345|gb|BE344813.1|BE344813
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211367120|gb|FL319134.1|FL319134
EST:     TAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCANACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGG
genomic: CAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCA-ACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGG
EST: gi|211078212|gb|FL339583.1|FL339583
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211096168|gb|FL332998.1|FL332998
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211320067|gb|FL327288.1|FL327288
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211262919|gb|FL344603.1|FL344603
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211012592|gb|FL327139.1|FL327139
EST:     CAAGGAGGACCTCCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CAAGGAGGACCTC-ACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211180977|gb|FL324623.1|FL324623
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211162340|gb|FL348127.1|FL348127
EST:     CCAAGGAG-ACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCTTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211320874|gb|FL365294.1|FL365294
EST:     CCAAGGAGGACCTCACCTTGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211411809|gb|FL328773.1|FL328773
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211170529|gb|FL341423.1|FL341423
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGAACTCCTTGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGA-CTCCTTGG
EST: gi|211306361|gb|FL348172.1|FL348172
EST:     CTAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACAAG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211314342|gb|FL341215.1|FL341215
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|148945896|gb|EC891188.2|EC891188
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|67020062|gb|CO448811.1|CO448811
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGACTCCTTGGG
EST: gi|211444176|gb|FL306971.1|FL306971
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGAC-AACACG                         ATCGTGAAGCCCAGGC-TTTGCAGGCTGCAAGCATTCCA
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCA
EST: gi|211108071|gb|FL361614.1|FL361614
EST:     CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACG                         ATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGGNACTCCTTGG
genomic: CCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttc ... attcttgcagATCGTGAAGCCCAGGCCTTTGCAGGCTGCAAGCATTCCAGG-ACTCCTTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACCATGGCAAGTGTCCCGCCACCAAGGAGGACCTCACCATGGATGATATCGTGCCGGTCAAGACCAACACGgtatggtttcttcggtatgctaacaagctgtcgcaacaaaattttcagtagcatgtggtgtggactgtagagtatcagtagccattttgtgtcttgctct

- - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - CATGGA