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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cactctttttaactctgtctttacgctgcttttagttctagttgaatactataataatataaggtctagcgattgctaatatattctggtgtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCCTTACCGCATACACTTTCTGGGCCGTGAATAGGGGCAAAGACTTCAGCTT

Basic information

species Zea mays
transcript GRMZM2G132568_T03
intron # 2
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|71763444|gb|DR961381.1|DR961381
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|29576948|gb|CB617060.1|CB617060
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|71757915|gb|DR955852.1|DR955852
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|30088155|gb|CB886360.1|CB886360
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|26558874|gb|CA831109.1|CA831109
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAG-G                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAG-GGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|87156714|gb|DY401503.1|DY401503
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|33098926|gb|CF058886.1|CF058886
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|76912855|gb|DV164912.1|DV164912
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|32850248|gb|CD989929.1|CD989929
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCCGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|91876243|gb|EB406200.1|EB406200
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|32844216|gb|CD983897.1|CD983897
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|78092495|gb|DV520869.1|DV520869
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|76910470|gb|DV163892.1|DV163892
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|149059660|gb|EE157003.2|EE157003
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|78077463|gb|DV505897.1|DV505897
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|211530941|gb|FL194454.1|FL194454
EST:     TTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: TTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|78106649|gb|DV525067.1|DV525067
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|134769119|gb|DY742723.1|DY742723
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|89250848|gb|DY622634.1|DY622634
EST:     AGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: AGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|78112127|gb|DV530523.1|DV530523
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|30031558|gb|CB833409.1|CB833409
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|32850305|gb|CD989986.1|CD989986
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|149059659|gb|EE157002.2|EE157002
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|78112126|gb|DV530522.1|DV530522
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|32844814|gb|CD984495.1|CD984495
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|74245688|gb|DT653602.1|DT653602
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|71419161|gb|DR804672.1|DR804672
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|89250538|gb|DY622324.1|DY622324
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|76011228|gb|DT938398.1|DT938398
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|71419160|gb|DR804671.1|DR804671
EST:     CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: CACCGTTGCCATCAGCTTTGCTGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
EST: gi|76919250|gb|DV167633.1|DV167633
EST:     TGTGGGCATGACATGTGCCTTCACCAGTG                         GCAAGGTCATTTTGGAGTTTGCAATTCTGACAACAGTGGTCGTGCTCAGCC
genomic: TGTGGGCATGACATGTGCCTTCACCAGTGgtaaccatct ... gtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atactataataatataaggtctagcgattgctaatatattctggtgtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCCTTACCGCATACACTTTCTGGGCCGTGAATAGGGGCAAAGACTTCAGCTT
                            tgctaat  putative branch site (score: 2)
     ataataatataaggt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cactctttttaactctgtctttacgctgcttttagttctagttgaatactataataatataaggtctagcgattgctaatatattctggtgtgtgaacagGCAAGGTCATTCTGGAGTCTGCAATTCTGACAACAGTGGTCGTGCTCAGCCTTACCGCATACACTTTCTGGGCCGTGAATAGGGGCAAAGACTTCAGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT