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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACACAAGATACAAAAGATGCTCACGGAGAAGGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcattcacattatgttacttgttattaactagttaatgctgttttttcattaactgttttttccatatgatgtttgctcag

Basic information

species Zea mays
transcript GRMZM2G017089_T02
intron # 3
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|76013838|gb|DT941008.1|DT941008
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|211485186|gb|FL175528.1|FL175528
EST:     GCTCTAGGAAATGC-ATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACA-CTCTGTCAATTCCTGGATCATC
genomic: GCTCTAGGAA-TGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|76013076|gb|DT940246.1|DT940246
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|78085590|gb|DV513983.1|DV513983
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|211104567|gb|FL375458.1|FL375458
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|211482306|gb|FL175513.1|FL175513
EST:     CTCTAGGAAAATGC-AT-GTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACA-CTCTGTCAATTCCTGGATCATC
genomic: CTCTAGGAA--TGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|78089068|gb|DV517459.1|DV517459
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|148951460|gb|EC897185.2|EC897185
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|211479425|gb|FL175508.1|FL175508
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|94478034|gb|EB706992.1|EB706992
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|148943611|gb|EC888674.2|EC888674
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGGCAAAA-TACAACTCTGTCAATTCCTGGATCAT
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGG-CAAAAATACAACTCTGTCAATTCCTGGATCAT
EST: gi|149079798|gb|EE168796.2|EE168796
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAAATACA-CTCTGTNCA-TTCCTGGATCA
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAA-TACAACTCTGT-CAATTCCTGGATCA
EST: gi|148950913|gb|EC896543.2|EC896543
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|148962621|gb|EE013511.2|EE013511
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
EST: gi|76019935|gb|DT947105.1|DT947105
EST:     GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACC                         TGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC
genomic: GGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcat ... gtttgctcagTGAATCTACCATACCTGGCAAAAATACAACTCTGTCAATTCCTGGATCATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAACACAAGATACAAAAGATGCTCACGGAGAAGGCTCTAGGAATGCCATTGTCCCTGCACCACTTATGCTGCCAAAAGCACCgtgagtgcattcacattatgttacttgttattaactagttaatgctgttttttcattaactgttttttccatatgatgtttgctcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC