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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcagtttttaataacttgttagcagctctgttgcttatattttgatgtttttatgcccaatattacttttatgattggaacttctatttcatgtttccagGTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTTGGTTCTGTCAATCAG

Basic information

species Zea mays
transcript GRMZM2G097768_T02
intron # 5
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|71766862|gb|DR964799.1|DR964799
EST:     TTATGGGTCGGCTGCTAGAAAGATTTGGAGTTGGTGTAATATCGTATACA                         GTACCGGTTTATATTGCAGAAATCGCTCCT
genomic: TTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACAgtatgcctcc ... atgtttccagGTACCGGTTTATATTGCAGAAATCGCTCCT
EST: gi|71772625|gb|DR970553.1|DR970553
EST:     TTGGAGTTGGTGTAATATCGTATACA                         GTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTT
genomic: TTGGAGTTGGTGTAATATCGTATACAgtatgcctcc ... atgtttccagGTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTT
EST: gi|148964510|gb|EC905855.2|EC905855
EST:     TTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACA                         GTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTC
genomic: TTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACAgtatgcctcc ... atgtttccagGTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTC
EST: gi|21390663|gb|BQ528712.1|BQ528712
EST:     TTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACA                         GTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTT
genomic: TTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACAgtatgcctcc ... atgtttccagGTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTT
EST: gi|148958173|gb|EC904377.2|EC904377
EST:     TTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACA                         GTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTT
genomic: TTATGGGTCGGCTGCTAGAAGGATTTGGAGTTGGTGTAATATCGTATACAgtatgcctcc ... atgtttccagGTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttatgcccaatattacttttatgattggaacttctatttcatgtttccagGTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTTGGTTCTGTCAATCAG
                                              tgtttcc  CT-rich tract
             aatattacttttatga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcagtttttaataacttgttagcagctctgttgcttatattttgatgtttttatgcccaatattacttttatgattggaacttctatttcatgtttccagGTACCGGTTTATATTGCAGAAATCGCTCCTCAAGATCAGAGGGGAGCTCTTGGTTCTGTCAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT