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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTATTGCCTCAATACCTGGATTTTTCTTTTGCTTGTGGTATGCGTCAAAGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAGgtttgtttgcatggtttaacattaataatttaatatgcattactaaagattatgggatgaagcctaaattcatttgatttgttttacacaccatttttagtttaccagaaccttgacagttcaattttgcag

Basic information

species Zea mays
transcript GRMZM2G044348_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044348_T04 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA04G08510.1 (Glycine max), 5'ss of exon 6
GATTATTGCCTCAATACCTGGATTTTTCTTTTGCTTGTGGTATGCGTCAAAGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAGgtttgtttgcatggtttaacattaataatttaatatgcattactaaagattatgggatgaagcctaaattcatttgatttgttttacacaccatttttagtttaccagaaccttgacagttcaattttgcag
| |  ||||   ||| |||||    || |||||    |||||||| |   ||||||||||||| ||||| ||| |  ||||  | ||||||||||||||||||||||    |   |  | || |||   ||| | |   ||   ||      | |    || |   |||| |||  || | ||||| ||   |||||| || | |||   || |                  
GGTCGTTGCTGGAATCCCTGGGACATTTTTTTGTGCCTGGTATGCTTTGCAGAAGCATTGGCTAGCAAATAATATATTGGGTCTTGCTTTCTGTATTCAGgtttgttgcttttcctatatataaatg--ttatttttttttgtcaa------ttgagccaatc---aattgatt--atgttttttatactaaatttttggtat-ccatttccat------------------
















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|149027787|gb|EE154597.2|EE154597
EST:     AGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAG                         GGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
genomic: AGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAGgtttgtttgc ... aattttgcagGGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
EST: gi|94475589|gb|EB704547.1|EB704547
EST:     CATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAG                         GGGATTGAGATGCTGTCATTGGGATCATTTAAAACGGGAGCCATTCTCTTG
genomic: CATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAGgtttgtttgc ... aattttgcagGGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
EST: gi|7137682|gb|AW499217.1|AW499217
EST:     AGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAG                         GGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
genomic: AGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAGgtttgtttgc ... aattttgcagGGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
EST: gi|67018214|gb|CO446963.1|CO446963
EST:     AGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAG                         GGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
genomic: AGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAGgtttgtttgc ... aattttgcagGGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
EST: gi|148944600|gb|EC889730.2|EC889730
EST:     AGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAG                         GGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
genomic: AGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAGgtttgtttgc ... aattttgcagGGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
EST: gi|149100816|gb|EE186910.2|EE186910
EST:     CCTGGGATTGGCTTTCTGTATTCAG                         GAGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG
genomic: CCTGGGATTGGCTTTCTGTATTCAGgtttgtttgc ... aattttgcagGGGATTGAGATGCTGTCATTGGGATCATTTAAAACTGGAGCCATTCTCTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTATTGCCTCAATACCTGGATTTTTCTTTTGCTTGTGGTATGCGTCAAAGAAGCATTGGCTTGCAAACAATGTCCTGGGATTGGCTTTCTGTATTCAGgtttgtttgcatggtttaacattaataatttaatatgcattactaaagattatgggatgaagcctaaattcatttgatttgttttacacaccatttttagtttaccagaaccttgacagttcaattttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC