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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGTACATTGTGGAGCTGGAAAACAGCCGGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcctgatctgttttcctctgaagaacgaaacgatccatactacttcgacgctgattgtctatgggctgtaaatacag

Basic information

species Zea mays
transcript GRMZM2G133331_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133331_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os06g15480.2 (Oryza sativa), 5'ss of exon 5
GCGTACATTGTGGAGCTGGAAAACAGCCGGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactc----ctgatctgttttcct-ctgaagaacgaaacgatccatactacttcgacgctgattgtctatgggctgtaaatacag--------------------------
|| ||||||  | || |||| | |||| |||||||||||   || |||||||||||||| ||||||||||| |||||||||| | |     || || |  | | |    ||   |    |      || |  ||  |  ||||    ||  |      | |  ||                           
GCATACATTCAGCAGTTGGAGAGCAGCAGGTCCAAGCTGATGCACCTTGAGCAGGAGCTCCAAAGGGCAAGACAGCAGgtgagccctgcattgttcagcatacttatcaaatcgccttgcagaatctaatgtttgaagtctgaacagctcagtaacaaatacgcaaatgcaattgacgactatcctttacag
















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|89764378|gb|DY691211.1|DY691211
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|101391801|gb|EB817829.1|EB817829
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|71448696|gb|DR829746.1|DR829746
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|76931345|gb|DV172707.1|DV172707
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATG
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATG
EST: gi|74237892|gb|DT645806.1|DT645806
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|93017001|gb|EB642521.1|EB642521
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|71311268|gb|DR791947.1|DR791947
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGC
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGC
EST: gi|71773720|gb|DR971616.1|DR971616
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCGGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|76923172|gb|DV169368.1|DV169368
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|71330993|gb|DR802318.1|DR802318
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|50329600|gb|CO524726.1|CO524726
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|91868422|gb|EB400029.1|EB400029
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
EST: gi|91871984|gb|EB401941.1|EB401941
EST:     GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAG                         GGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA
genomic: GGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcct ... gtaaatacagGGGATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGTACATTGTGGAGCTGGAAAACAGCCGGTCCAAGCTGTCCCATCTTGAGCAGGAGCTTCAAAGGGCAAGGCAGCAGgtgaactcctgatctgttttcctctgaagaacgaaacgatccatactacttcgacgctgattgtctatgggctgtaaatacag

- - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT