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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaacacattttgttatgcttactcccatttgtacttctgagttctgtcttagttgttcttactggtgtttgaaaccattgcttatgttatacttgagcagGTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG

Basic information

species Zea mays
transcript GRMZM2G108739_T02
intron # 2
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|101394818|gb|EB819343.1|EB819343
EST:     CTTCAGTGGCTTCGCAAGGATGTCCTGGTGCACTATTGAGTCTGATCCTG                         GTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG
genomic: CTTCAGTGGCTTCGCAAGGATGTCCTGGTGCACTATTGAGTCTGATCCTGgtgagttttc ... acttgagcagGTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG
EST: gi|211488685|gb|FL428190.1|FL428190
EST:     CTTCAGTGGCTTCGCAAGGATGTCCTGGTGCACTATTGAGTCTGATCCTG                         GTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG
genomic: CTTCAGTGGCTTCGCAAGGATGTCCTGGTGCACTATTGAGTCTGATCCTGgtgagttttc ... acttgagcagGTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG
EST: gi|101394052|gb|EB818959.1|EB818959
EST:     CTTCAGTGGCTTCGCAAGGATGTCCTGGTGCACTATTGAGTCTGATCCTG                         GTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG
genomic: CTTCAGTGGCTTCGCAAGGATGTCCTGGTGCACTATTGAGTCTGATCCTGgtgagttttc ... acttgagcagGTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttagttgttcttactggtgtttgaaaccattgcttatgttatacttgagcagGTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG
          ttcttac  putative branch site (score: 2)
                                    ttatgttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaacacattttgttatgcttactcccatttgtacttctgagttctgtcttagttgttcttactggtgtttgaaaccattgcttatgttatacttgagcagGTGTGTTCACTGAGCTGATTCAGCAAATGCAAGTGAAAGGTGTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT