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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcatacatatatattgttttcaagttttgcaaattgtttagttattcgtgcttgtagtaatttacttccagttttaaattattatttccatctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGTTCTTATTTCAGCAGAATCTGAAACTCAG

Basic information

species Zea mays
transcript GRMZM2G553379_T01
intron # 1
splice site 3'
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|101396806|gb|EB820329.1|EB820329
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACCAATATTCCACCGATTCATG                         TATGGACAAAATTC
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTC
EST: gi|9742855|gb|BE519003.1|BE519003
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
EST: gi|211020973|gb|FL097347.1|FL097347
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATT
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATT
EST: gi|74238831|gb|DT646745.1|DT646745
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGC
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGC
EST: gi|26559563|gb|CA831798.1|CA831798
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
EST: gi|50329667|gb|CO524793.1|CO524793
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATTCTTGACCGGTACGAGCGC
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGC
EST: gi|149109077|gb|EE293126.2|EE293126
EST:     AAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TAT-GACAAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGG
genomic: AAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGAC-AAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGG
EST: gi|211020972|gb|FL097346.1|FL097346
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
EST: gi|76909292|gb|DV163313.1|DV163313
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
EST: gi|149008923|gb|EE041143.2|EE041143
EST:     ATCATCTTCTCCCCCAAAGGGAAGCTCTACGAATATTCCACCGATTCATG                         GATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
EST: gi|149109078|gb|EE189996.2|EE189996
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
EST: gi|37424942|gb|CF650205.1|CF650205
EST:     ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATG                         TATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT
genomic: ATCATCTTCTCCACCAAAGGGAAGCTCTACGAGTATTCCACCGATTCATGgtacgtaccc ... tctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgtgcttgtagtaatttacttccagttttaaattattatttccatctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGTTCTTATTTCAGCAGAATCTGAAACTCAG
                                    ttatttccatctttc  CT-rich tract
            taatttacttccagtt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcatacatatatattgttttcaagttttgcaaattgtttagttattcgtgcttgtagtaatttacttccagttttaaattattatttccatctttcacagTATGGACAAAATTCTTGACCGGTACGAGCGCTACTCCTATGCAGAAAAGGTTCTTATTTCAGCAGAATCTGAAACTCAG

-catacat
- - - - - - - - - - - - ttttgca
- - - - - - - - - - - - - - - - - - - - - - - - tgcttgt