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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcacggtacattgttaactgctagtttgcttgtgtgaattttgaaattaatatgtttccatctgtaaataatcccctaatgatttctgcatgtgacagGTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTCTGAAACCATGGTTTTCAGGGAGTGCCTCACGGCCTATAAAAGGTTTAAA

Basic information

species Zea mays
transcript GRMZM2G002361_T01
intron # 7
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|91056993|gb|EB167411.1|EB167411
EST:     ATCAAACAATATGGAGGTTGAATCCACCGATGTTGAAATGCAAGATTAAG                         GTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTC
genomic: ATCAAACAATATGGAGGTTGAATCCACCGATGTTGAAATGCAAGATTAAGgtgagggaat ... catgtgacagGTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTC
EST: gi|7145326|gb|AW506807.1|AW506807
EST:     ATCAAACAATATGGAGGTTGAATCCACCGATGTTGAAATGCAAGATTAAG                         GTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTC
genomic: ATCAAACAATATGGAGGTTGAATCCACCGATGTTGAAATGCAAGATTAAGgtgagggaat ... catgtgacagGTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTC
EST: gi|60393937|gb|DN226807.1|DN226807
EST:     ATCAAACAATATGGAGGTTGAATCCACCGATGTTGAAATGCAAGATTAAG                         GTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTC
genomic: ATCAAACAATATGGAGGTTGAATCCACCGATGTTGAAATGCAAGATTAAGgtgagggaat ... catgtgacagGTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattaatatgtttccatctgtaaataatcccctaatgatttctgcatgtgacagGTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTCTGAAACCATGGTTTTCAGGGAGTGCCTCACGGCCTATAAAAGGTTTAAA
                              ccctaat  putative branch site (score: 3)
                                       tttctgc  putative PPT
                   tgtaaataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgcacggtacattgttaactgctagtttgcttgtgtgaattttgaaattaatatgtttccatctgtaaataatcccctaatgatttctgcatgtgacagGTTGAAGAGGTAGGCTTTCATGTCAGCATTTTAACAAACGACATGGTCGTCTGAAACCATGGTTTTCAGGGAGTGCCTCACGGCCTATAAAAGGTTTAAA

ctgcacg
- - - - - - - - - -ctgctag
- - - - - - - - - - - - - - tgcttgt