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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttcttcacgggcaggattgctaagttgactttatctcttgtgcatatgagttttttttttgggggggggtagatctgacgttttcccccttgctttttacag

Basic information

species Zea mays
transcript GRMZM2G039889_T02
intron # 6
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|78107919|gb|DV526337.1|DV526337
EST:     GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|76910226|gb|DV163762.1|DV163762
EST:     GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|50336508|gb|CO531634.1|CO531634
EST:     GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|78123847|gb|DV542231.1|DV542231
EST:     GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|78115266|gb|DV533654.1|DV533654
EST:     GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|76016911|gb|DT944081.1|DT944081
EST:     GGTGAAGGGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|71299499|gb|DR785760.1|DR785760
EST:     GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|71326312|gb|DR799844.1|DR799844
EST:     AATGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|60400549|gb|DN233356.1|DN233356
EST:     GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
EST: gi|71762950|gb|DR960887.1|DR960887
EST:     GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG                         CTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC
genomic: GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttctt ... ctttttacagCTGCAAATATGGTTCTATTTGTCGCTTCAACCATCCTGATCGGCCAGGGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGgtaccttcttcacgggcaggattgctaagttgactttatctcttgtgcatatgagttttttttttgggggggggtagatctgacgttttcccccttgctttttacag

- - AGTGGA
- - - - - - - - - - - - TGAAGA