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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaccaccccaaccgatttgcgctgtttgatgagttgttcaaaactacactctgccacttttgattttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCTCAG

Basic information

species Zea mays
transcript GRMZM2G374779_T03
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|211340859|gb|FL372915.1|FL372915
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211357926|gb|FL387018.1|FL387018
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211458917|gb|FL402420.1|FL402420
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211319230|gb|FL384888.1|FL384888
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|101397865|gb|EB820809.1|EB820809
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211298857|gb|FL392428.1|FL392428
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211158456|gb|FL415219.1|FL415219
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGCTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211533538|gb|FL409967.1|FL409967
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211487556|gb|FL382361.1|FL382361
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211530844|gb|FL420796.1|FL420796
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|32868245|gb|CF007927.1|CF007927
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
EST: gi|211504683|gb|FL413307.1|FL413307
EST:     ACAGGCTGATATAATCTGCAACAAG                         GTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT
genomic: ACAGGCTGATATAATCTGCAACAAGgtcaccaccc ... ttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgtttgatgagttgttcaaaactacactctgccacttttgattttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCTCAG
                                     ttttgat  putative branch site (score: 4)
                                    cttttgattttttttc  CT-rich tract
                                   acttttgatttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcaccaccccaaccgatttgcgctgtttgatgagttgttcaaaactacactctgccacttttgattttttttccagGTCAAGGAAATGAAACAACTGAGAGGTGGCTACAACATAGTTGGTCTGTCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG