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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgtactgtagactgcactgtttgcagagtggagtttgaatatggggatgagtaagctgctggatatagtcttagtaacccctttttgtttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAAATTGAGT

Basic information

species Zea mays
transcript GRMZM2G006069_T01
intron # 1
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|74244217|gb|DT652131.1|DT652131
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
EST: gi|211221619|gb|FL170902.1|FL170902
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
EST: gi|18178045|gb|BM379255.1|BM379255
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
EST: gi|211221621|gb|FL170904.1|FL170904
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
EST: gi|211221616|gb|FL170899.1|FL170899
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGTGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
EST: gi|76283051|gb|DV022619.1|DV022619
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
EST: gi|211221618|gb|FL170901.1|FL170901
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
EST: gi|211221617|gb|FL170900.1|FL170900
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
EST: gi|211221620|gb|FL170903.1|FL170903
EST:     AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAG                         TGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA
genomic: AAGATCTCGGCCCCCCGCACCCCGATCTCGCGCGACATCTACCACTCCAGgtgagccgag ... ttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggatgagtaagctgctggatatagtcttagtaacccctttttgtttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAAATTGAGT
                            tagtaac  putative branch site (score: 1)
                                  cccctttttgtttctt  CT-rich tract
                                      tttttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgtactgtagactgcactgtttgcagagtggagtttgaatatggggatgagtaagctgctggatatagtcttagtaacccctttttgtttcttgttagTGACTCTCTTCTGCGTGAAATCAAGGCTTTGGTTGCTCGGCATTCCAGCAAATTGAGT

- tgtactg
- - - - - -gactgca
- - - - - - - - - -tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgctg