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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGTGTGCTATTATTTCGCTGGTTCTGGAGCTATATTTACAGGTGACACCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcacttgcttgcaaatatcttcatttacatgtatgttgtgtgaaggtgctactggacttctgtgacaagctactcctttgtagtgcttttatttc...

Basic information

species Zea mays
transcript GRMZM2G120300_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G120300_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os09g34100.1 (Oryza sativa), 5'ss of exon 5
TCATGTGTGCTATTATTTCGCTGGTTCTGGAGCTATATTTACAGGTGACACCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcacttgcttgcaaatatcttcatttacatgtatgttgtgtgaaggtgctactggacttc---tgtgacaagctactcctttgta-gtgctt-ttatttc
||||||||||||  | ||| |||| |||||||| ||||||||||| ||||| ||||| | | | ||||| |||||||||||||||||||||||||| |||||| ||   |   ||  | | |   |||| | |||||    | | || | ||   | |  ||  |   ||  |     | ||   ||  | || ||| ||  |||
TCATGTGTGCTACCACTTCCCTGGATCTGGAGCAATATTTACAGGGGACACATTGTTTAGTTTGTCATGTGGAAAGCTTTTTGAAGGGACTCCACAACAGgttcttt-ttaatttttacagag--tcatcttcatgtgcactttatggaagta--attaaacaccaaatgctatgttttgcttgattccatgtacttgttcattc
















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|5325053|gb|AI783244.1|AI783244
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAANATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|76286960|gb|DV026528.1|DV026528
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|111991062|gb|EE331971.1|EE331971
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|32925422|gb|CF030234.1|CF030234
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|32831167|gb|CD970845.1|CD970845
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|32926516|gb|CF031328.1|CF031328
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|89755327|gb|DY685795.1|DY685795
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|32925540|gb|CF030352.1|CF030352
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACGGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|78113025|gb|DV531419.1|DV531419
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAGGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|76290102|gb|DV029670.1|DV029670
EST:     GAAAGC-TTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: GAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|32831772|gb|CD971450.1|CD971450
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|5846865|gb|AI999948.1|AI999948
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGA
EST: gi|60400379|gb|DN233186.1|DN233186
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|89758697|gb|DY687784.1|DY687784
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCAACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACC
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACC
EST: gi|60356731|gb|DN223704.1|DN223704
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|78113024|gb|DV531418.1|DV531418
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|32926815|gb|CF031627.1|CF031627
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|5770170|gb|AI973344.1|AI973344
EST:     TTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: TTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|60359081|gb|DN226054.1|DN226054
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|149112937|gb|EE295730.2|EE295730
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|211480476|gb|FL101272.1|FL101272
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|6445407|gb|AW179475.1|AW179475
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|148947425|gb|EC892845.2|EC892845
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|60352578|gb|DN219551.1|DN219551
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|149026716|gb|EE046118.2|EE046118
EST:     CTTGTTCAATCTATCATGCGGAAAGCTTTTTTGA-GGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CTTGTTCAATCTATCATGCGGAAAGCTTTTT-GAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|149103111|gb|EE288478.2|EE288478
EST:     CTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|91048227|gb|EB158645.1|EB158645
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
EST: gi|67017612|gb|CO446361.1|CO446361
EST:     CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAG                         ATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA
genomic: CCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcact ... ctcattgcagATGTATGCCTCACTCCAGAAAATTACAGCTCTACCCGATGATACAAAAGTA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCATGTGTGCTATTATTTCGCTGGTTCTGGAGCTATATTTACAGGTGACACCTTGTTCAATCTATCATGCGGAAAGCTTTTTGAAGGGACTCCACAGCAGgtttttcacttgcttgcaaatatcttcatttacatgtatgttgtgtgaaggtgctactggacttctgtgacaagctactcctttgtagtgcttttatttc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG