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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcaactaccatcctttttccatgcttctgctgctgatttcctttgttcgtcaatatatgataataacctgtgagtgttttttttacttctgttgcggtgcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACA

Basic information

species Zea mays
transcript GRMZM2G097768_T02
intron # 4
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|50325333|gb|CO520459.1|CO520459
EST:     TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAA                         GATTCCTCTTTCTTGTTTATGGGTCGGCTGCT
genomic: TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCT
EST: gi|148987704|gb|EE031592.2|EE031592
EST:     TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAA                         GATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTGGGT
genomic: TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT
EST: gi|71766862|gb|DR964799.1|DR964799
EST:     TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAA                         GATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAAGATTTGGAGTTGGT
genomic: TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT
EST: gi|50325566|gb|CO520692.1|CO520692
EST:     TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAA                         GATTCCTCTTTCTTGTTTATGGGTCGGCTGCT
genomic: TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCT
EST: gi|148964510|gb|EC905855.2|EC905855
EST:     TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAA                         GATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT
genomic: TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT
EST: gi|71331313|gb|DR802490.1|DR802490
EST:     TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAA                         GATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAAGATTTGGAGTTGGT
genomic: TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT
EST: gi|21390663|gb|BQ528712.1|BQ528712
EST:     TATCATTTGCAAAA                         GATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT
genomic: TATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT
EST: gi|148991896|gb|EE033498.2|EE033498
EST:     TCGCTGCGATTCCAAAAATAATTGGGTGGCTCGCGATATCATTTGCAAAA                         GATTCCCTCTTTCTTGTTTATGG
genomic: TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCC-TCTTTCTTGTTTATGG
EST: gi|148958173|gb|EC904377.2|EC904377
EST:     TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAA                         GATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT
genomic: TCGCTGCGATTCCAAACATAATTGGGTGGCTCGCGATATCATTTGCAAAAgtaagttcaa ... gcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatgataataacctgtgagtgttttttttacttctgttgcggtgcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACA
       taataac  putative branch site (score: 1)
                     tgttttttttactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcaactaccatcctttttccatgcttctgctgctgatttcctttgttcgtcaatatatgataataacctgtgagtgttttttttacttctgttgcggtgcatattcagGATTCCTCTTTCTTGTTTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG