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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGCTATGGGCTGTACTGCAGCACTCAAGGCTATGCAGTGGTACCGGGGTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaatatgccgtttgagtaggtagaactggttatttaaaataacttgcatgaattttagaataactaaaactatactttacgatattccctttgag...

Basic information

species Zea mays
transcript GRMZM2G102156_T02
intron # 12
splice site 5'
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|78022798|gb|DV491185.1|DV491185
EST:     GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAG                         TTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
genomic: GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaata ... caacttgcagTTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
EST: gi|32796585|gb|CD948821.1|CD948821
EST:     GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAG                         TTGTGGGATGGCACACTTGTTA
genomic: GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaata ... caacttgcagTTGTGGGATGGCACACTTGTTA
EST: gi|88757323|gb|DY541464.1|DY541464
EST:     GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAG                         TTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
genomic: GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaata ... caacttgcagTTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
EST: gi|89754433|gb|DY685214.1|DY685214
EST:     GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAG                         TTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
genomic: GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaata ... caacttgcagTTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
EST: gi|67015675|gb|CO444424.1|CO444424
EST:     GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAG                         TTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
genomic: GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaata ... caacttgcagTTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
EST: gi|148928469|gb|EE285275.2|EE285275
EST:     GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAG                         TTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
genomic: GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaata ... caacttgcagTTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
EST: gi|5757240|gb|AI964527.1|AI964527
EST:     GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAG                         TTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
genomic: GTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaata ... caacttgcagTTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
EST: gi|94477471|gb|EB706429.1|EB706429
EST:     TCAAACCTTGATACTGACCACATGAAGCTCAAGGAG                         TTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA
genomic: TCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaata ... caacttgcagTTGTGGGATGGCACACTTGTTAAGCAGTTGTCGTCACTACCGAATGTGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCATGCTATGGGCTGTACTGCAGCACTCAAGGCTATGCAGTGGTACCGGGGTCCATCCACCAATTCAAACCTTGATACTGACCACATGAAGCTCAAGGAGgtaagaaatatgccgtttgagtaggtagaactggttatttaaaataacttgcatgaattttagaataactaaaactatactttacgatattccctttgag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG