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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCCAGAGATGGTTGATAAACCAGTTGACACCATTTTGCTCAAGCTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatattgtaaagtcctagccctgattgtttggaaggacaatactatgataaataaaaaaatatcaatttgtcttctaagctgttttttcctcaaa...

Basic information

species Zea mays
transcript GRMZM5G862959_T04
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|211484297|gb|FL254347.1|FL254347
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|211337491|gb|FL098065.1|FL098065
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|88753184|gb|DY537325.1|DY537325
EST:     CTTCGTGGTTTATATGCCCGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGA
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGA
EST: gi|71332525|gb|DR803228.1|DR803228
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|211484295|gb|FL254345.1|FL254345
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTAYTAGATGGTTTGTTGCAATCTGGA
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGA
EST: gi|211484293|gb|FL254343.1|FL254343
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|211337492|gb|FL098066.1|FL098066
EST:     TTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: TTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTG-AGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|211337495|gb|FL098069.1|FL098069
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAAATCTGGAG
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAA-TCTGGAG
EST: gi|71439819|gb|DR820869.1|DR820869
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|93283255|gb|EB675519.1|EB675519
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|211337493|gb|FL098067.1|FL098067
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTACTAGATGGTTTGTTGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGC
EST: gi|211484292|gb|FL254342.1|FL254342
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|211337494|gb|FL098068.1|FL098068
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|211043059|gb|FL422974.1|FL422974
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGATTATTAGATGGTTTGTTGCAATCTGGAGC
EST: gi|211337490|gb|FL098064.1|FL098064
EST:     CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAG                         TGCCTCAAATGCTTTGATTGGAT
genomic: CTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatat ... cttcttgcagTGCCTCAAATGCTTTGATTGGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCCCAGAGATGGTTGATAAACCAGTTGACACCATTTTGCTCAAGCTTCGTGGTTTATATGCACGTGCAAAGGAGCTCTCTGAGAATGAAATCAGgtaaatatattgtaaagtcctagccctgattgtttggaaggacaatactatgataaataaaaaaatatcaatttgtcttctaagctgttttttcctcaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT