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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGATGCGCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatcctatctctatctctatttctctatggctgcatcggttcagttgtccagtgttactgaaagatggcatcattattggctattgcag

Basic information

species Zea mays
transcript GRMZM2G146463_T01
intron # 4
splice site 5'
intron type U2

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|211092681|gb|FL286914.1|FL286914
EST:     GCTCGTCGCCACCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|76930345|gb|DV172346.1|DV172346
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|89250668|gb|DY622454.1|DY622454
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|78113279|gb|DV531671.1|DV531671
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|91054335|gb|EB164753.1|EB164753
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|211092689|gb|FL286922.1|FL286922
EST:     GCTCGTCGCCACCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|78080808|gb|DV509220.1|DV509220
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTC
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTC
EST: gi|91874599|gb|EB404556.1|EB404556
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAA                         ATGACTGCTGGGCGG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGG
EST: gi|211095153|gb|FL286926.1|FL286926
EST:     GCTCGTCGCCACCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAR
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|211095154|gb|FL286927.1|FL286927
EST:     GCTCGTCGCCACCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|71431665|gb|DR812715.1|DR812715
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|78108215|gb|DV526633.1|DV526633
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|149055656|gb|EE156361.2|EE156361
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|101386530|gb|EB815281.1|EB815281
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|71442888|gb|DR823938.1|DR823938
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|78075209|gb|DV503643.1|DV503643
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAGG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGA-G
EST: gi|71442889|gb|DR823939.1|DR823939
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|71435988|gb|DR817038.1|DR817038
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|78088431|gb|DV516824.1|DV516824
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|29947680|gb|CB816781.1|CB816781
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|211095152|gb|FL286925.1|FL286925
EST:     GCTCGTCGCCACCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|71428787|gb|DR809837.1|DR809837
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|37424719|gb|CF650092.1|CF650092
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|211092683|gb|FL286916.1|FL286916
EST:     GCTCGTCGCCACCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|71443418|gb|DR824468.1|DR824468
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|71443280|gb|DR824330.1|DR824330
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|71318127|gb|DR795825.1|DR795825
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|148940241|gb|EC885013.2|EC885013
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|91875282|gb|EB405239.1|EB405239
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|74238712|gb|DT646626.1|DT646626
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|76011884|gb|DT939054.1|DT939054
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|149009677|gb|EE041609.2|EE041609
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|78110547|gb|DV528957.1|DV528957
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|148973153|gb|EE024223.2|EE024223
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|211092685|gb|FL286918.1|FL286918
EST:     GCTCGTCGCCACCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|149013904|gb|EE043402.2|EE043402
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|89763957|gb|DY690934.1|DY690934
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
EST: gi|50334852|gb|CO529978.1|CO529978
EST:     GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAG                         ATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG
genomic: GCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatc ... gctattgcagATGACTGCTGGGCGGATTCCGAGAGAACCAAAGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGATGCGCTCGTCGCCATCGGACTTGCAAAGGCTGGCTACACGTATGTCAACTTAGgtatcgcatcctatctctatctctatttctctatggctgcatcggttcagttgtccagtgttactgaaagatggcatcattattggctattgcag

- - - - - - - - - - - - - GCAAAG