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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttactaggatgagtaaaaatgaaaaatactttctataacgggtctggacaaatttcttttcaatgcttgcgattctcaatccctctatccctctatgcagTACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGATGACACTGTGGGACAAAGCCGGTGCTGTACCTGCAGAGAAGCTGGAGCTC

Basic information

species Zea mays
transcript GRMZM2G086971_T02
intron # 6
splice site 3'
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|5740116|gb|AI947806.1|AI947806
EST:     TTCAGGAACTATGGACAAGGAAGGAGTCCTTCACCTGGTCTCCTTGAGAG                         TACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGAT
genomic: TTCAGGAACTATGGACAAGGAAGGAGTCCTTCACCTGGTCTCCTTGAGAGgtatatatcc ... ctctatgcagTACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGAT
EST: gi|78125582|gb|DV543966.1|DV543966
EST:     TTCAGGAACTATGGACAAGGAAGGAGTCCTTCACCTGGTCTCCTTGAGAG                         TACGATTTTCACAGGATGGGTGCCCACTCTTTTCAGAGCTGGAAGAGGGAT
genomic: TTCAGGAACTATGGACAAGGAAGGAGTCCTTCACCTGGTCTCCTTGAGAGgtatatatcc ... ctctatgcagTACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGAT
EST: gi|76012728|gb|DT939898.1|DT939898
EST:     TTCAGGAACTATGGACAAGGAAGGAGTCCTTCACCTGGTCTCCTTGAGAG                         TACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGAT
genomic: TTCAGGAACTATGGACAAGGAAGGAGTCCTTCACCTGGTCTCCTTGAGAGgtatatatcc ... ctctatgcagTACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGAT
EST: gi|50324094|gb|CO519220.1|CO519220
EST:     TTCAGGAACTATGGACAAGGAACGAGTCCTTCACCTGGTCTCCTTGAGAG                         TACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGAT
genomic: TTCAGGAACTATGGACAAGGAAGGAGTCCTTCACCTGGTCTCCTTGAGAGgtatatatcc ... ctctatgcagTACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggacaaatttcttttcaatgcttgcgattctcaatccctctatccctctatgcagTACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGATGACACTGTGGGACAAAGCCGGTGCTGTACCTGCAGAGAAGCTGGAGCTC
                           ttctcaatccctctat  CT-rich tract
     aatttcttttcaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttactaggatgagtaaaaatgaaaaatactttctataacgggtctggacaaatttcttttcaatgcttgcgattctcaatccctctatccctctatgcagTACGATTTTCACAGGATGGGTGCCCACTCTTCTCAGAGCTGGAAGAGGGATGACACTGTGGGACAAAGCCGGTGCTGTACCTGCAGAGAAGCTGGAGCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT