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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTAATGCAAAGTTTGCCTTGAGTGTAGAACCGGGAAATAAAGCATTGCAGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttatctgtctttgtgacaagctagtgcttcttaagcatgaaattatgcatttctagctttgtttaccttaaaagtcctcgattctattctttct...

Basic information

species Zea mays
transcript GRMZM2G120300_T01
intron # 7
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 7
lower sequence: LOC_Os09g34100.1 (Oryza sativa), 5'ss of exon 7
AGTAATGCAAAGTTTGCCTTGAGTGTAGAACCGGGAAATAAAGCATTGCAGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgta---atgttatctgtctttgtgacaagctagtgcttcttaagcatgaaattatgcatttctagctttgtttaccttaaaagtcctcgattctattctttct
|| ||| ||||||||||||||||  ||||||| ||||||||||  || |||||||| ||||||||||| ||||| || || || | ||||| ||||||||||    || |||           | |  |  |   ||||| |  ||  |||| |      |    |||  | |  ||    |   |   |||||  |||   
AGCAATTCAAAGTTTGCCTTGAGCATAGAACCAGGAAATAAAGACTTACAGGAATACGCTGCAAATGCCGCTGATCTCCGCAAGAGGAATACACCCACGgtattagtgctatacaaaccatacatattcatggttttcttgacaatccaattctattacacattattttatgatgtttcttgcttttacttctaaactt---
















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|76286960|gb|DV026528.1|DV026528
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|111991062|gb|EE331971.1|EE331971
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGNCCCACAACAATTGGAAGGGGAGAAGGAATGCAATCCTTTCTTGCGGA
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTG-CCAACAACAATTGGAAGGG-AGAAGGAATGCAATCCTTTCTTGCGGA
EST: gi|32925422|gb|CF030234.1|CF030234
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|89249021|gb|DY620807.1|DY620807
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|32831167|gb|CD970845.1|CD970845
EST:     AGGAATATGCAGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|32926516|gb|CF031328.1|CF031328
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|89755327|gb|DY685795.1|DY685795
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAAGGCAATCCTTTCTTGGGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|76912678|gb|DV164843.1|DV164843
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|32925540|gb|CF030352.1|CF030352
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|88754584|gb|DY538725.1|DY538725
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGGAAGGAATGCAATCCTTTCTTGCGGAC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGA-GAAGGAATGCAATCCTTTCTTGCGGAC
EST: gi|76290102|gb|DV029670.1|DV029670
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|78023265|gb|DV491652.1|DV491652
EST:     GCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: GCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|32831772|gb|CD971450.1|CD971450
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|60400379|gb|DN233186.1|DN233186
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|29130986|gb|CB381690.1|CB381690
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCCCG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|60356731|gb|DN223704.1|DN223704
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|78113024|gb|DV531418.1|DV531418
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|32926815|gb|CF031627.1|CF031627
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|5770170|gb|AI973344.1|AI973344
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|60359081|gb|DN226054.1|DN226054
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|149112937|gb|EE295730.2|EE295730
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|6445407|gb|AW179475.1|AW179475
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|148947425|gb|EC892845.2|EC892845
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|60352578|gb|DN219551.1|DN219551
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|149103111|gb|EE288478.2|EE288478
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCCCG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|211219681|gb|FL290067.1|FL290067
EST:     TAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: TAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|67017612|gb|CO446361.1|CO446361
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACATTTG-AATGGAGAAGGGATGCA-TCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
EST: gi|60399854|gb|DN232664.1|DN232664
EST:     AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACG                         GTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC
genomic: AGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttat ... acgtttgcagGTGCCAACAACAATTGGAAGGGAGAAGGAATGCAATCCTTTCTTGCGGACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTAATGCAAAGTTTGCCTTGAGTGTAGAACCGGGAAATAAAGCATTGCAGGAATATGCTGCAAATGCAGCTGAGCTGCGTAATAAGAATATACCCACGgtaatgttatctgtctttgtgacaagctagtgcttcttaagcatgaaattatgcatttctagctttgtttaccttaaaagtcctcgattctattctttct

- - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC