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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAACTTGAGGATCTGCGCTGATGGAGGAGCTAATCATATTTTTGATGAGATGTATCAGATAACCAATGATGAAGACAAAAAAAGCACCAGAAATAAgtgaagtttttttctccattattttatactaaagtgcttattaagttttcaacattcttaagatcatattctaataggaactgccataccaccattttta...

Basic information

species Zea mays
transcript GRMZM2G055458_T03
intron # 3
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|71440580|gb|DR821630.1|DR821630
EST:     GAGATGTATCAGATAACCAATGATGAAGACNNNNNNNGCACCAGAAATAA                         GTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
genomic: GAGATGTATCAGATAACCAATGATGAAGACAAAAAAAGCACCAGAAATAAgtgaagtttt ... tattatccagGTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
EST: gi|50337459|gb|CO532585.1|CO532585
EST:     GAGATGTATCAGATAACCAATGATGAAGACNNNNNNNGCACCAGAAATAA                         GTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
genomic: GAGATGTATCAGATAACCAATGATGAAGACAAAAAAAGCACCAGAAATAAgtgaagtttt ... tattatccagGTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
EST: gi|211049191|gb|FL204538.1|FL204538
EST:     GAGATGTATCAGATAACCAATGATGAAGACNNNNNNNGCACCAGAAATAA                         GTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
genomic: GAGATGTATCAGATAACCAATGATGAAGACAAAAAAAGCACCAGAAATAAgtgaagtttt ... tattatccagGTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
EST: gi|211049189|gb|FL204536.1|FL204536
EST:     GAGATGTATCAGATAACCAATGATGAAGACNNNNNNNGCACCAGAAATAA                         GTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
genomic: GAGATGTATCAGATAACCAATGATGAAGACAAAAAAAGCACCAGAAATAAgtgaagtttt ... tattatccagGTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
EST: gi|101387490|gb|EB815760.1|EB815760
EST:     GAGATGTATCAGATAACCAATGATGAAGAC-AAAAAAGCACCAGAAATAA                         GTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
genomic: GAGATGTATCAGATAACCAATGATGAAGACAAAAAAAGCACCAGAAATAAgtgaagtttt ... tattatccagGTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
EST: gi|211049192|gb|FL204539.1|FL204539
EST:     GAGATGTATCAGATAACCAATGATGAAGACNNNNNNNGCACCAGAAATAA                         GTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT
genomic: GAGATGTATCAGATAACCAATGATGAAGACAAAAAAAGCACCAGAAATAAgtgaagtttt ... tattatccagGTATGTTCCAGAAATAATTGAAGGGGACATGGATTCTATAAGACCTGAAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAACTTGAGGATCTGCGCTGATGGAGGAGCTAATCATATTTTTGATGAGATGTATCAGATAACCAATGATGAAGACAAAAAAAGCACCAGAAATAAgtgaagtttttttctccattattttatactaaagtgcttattaagttttcaacattcttaagatcatattctaataggaactgccataccaccattttta

- - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA