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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGACATTGTGTTTCTTTACCACCGTGCTAGTTCAGCTCCAGATTTTGCACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttctatttctgttttcccttacgccacgtttggattattggaattgaattccattctaataatagtaatttaggcatatatcaattaagctaat...

Basic information

species Zea mays
transcript GRMZM2G117388_T03
intron # 2
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|211411635|gb|FL206598.1|FL206598
EST:     ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAG                         ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
genomic: ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttct ... gaccttgcagATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
EST: gi|211262949|gb|FL116380.1|FL116380
EST:     ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAG                         ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCAT
genomic: ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttct ... gaccttgcagATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCAT
EST: gi|211265396|gb|FL116402.1|FL116402
EST:     ACCCATTACTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAG                         ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
genomic: ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttct ... gaccttgcagATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
EST: gi|211267826|gb|FL116414.1|FL116414
EST:     ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAG                         ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTYCATGANA
genomic: ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttct ... gaccttgcagATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
EST: gi|32788829|gb|CD941065.1|CD941065
EST:     CCCATTATTTCTCTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAG                         ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
genomic: CCCATTATTTCT-TTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttct ... gaccttgcagATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
EST: gi|211411636|gb|FL206599.1|FL206599
EST:     ACC-ATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAG                         ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
genomic: ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttct ... gaccttgcagATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
EST: gi|94476147|gb|EB705105.1|EB705105
EST:     ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAG                         ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
genomic: ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttct ... gaccttgcagATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA
EST: gi|211265391|gb|FL116397.1|FL116397
EST:     ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAG                         ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCAC-ATTTTCCATGAAA
genomic: ACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttct ... gaccttgcagATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGACATTGTGTTTCTTTACCACCGTGCTAGTTCAGCTCCAGATTTTGCACCCATTATTTCTTTACTTAGATTACCCCTTGGTGTTCAAGAAGTTTGAGgttagcttctatttctgttttcccttacgccacgtttggattattggaattgaattccattctaataatagtaatttaggcatatatcaattaagctaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT