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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtaaattcttctttcatcctgtagaaacgaaaaactcttcttactaattaatacttctttacttgcagATCCGCAATAGAAGGCGAATGTGGATTCCTTGCAGCAAACTTATACGCAAAAAGTGTATTTGGTGAGGATGCTCTTGTGAATGTGAGTATTGAGAAGCAA

Basic information

species Arabidopsis thaliana
transcript AT4G31480.2
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|164110835|gb|ES068460.1|ES068460
EST:     -TCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCC                         ATCCGCAATAGAAGGCGAAT
genomic: TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCCgtaagtgtaa ... ttacttgcagATCCGCAATAGAAGGCGAAT
EST: gi|86058808|gb|DR354565.1|DR354565
EST:     TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCC                         ATCCGCAATAGAAGGCGAATGTGGATTCCTTGCAGCAAACTTATACGCAAA
genomic: TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCCgtaagtgtaa ... ttacttgcagATCCGCAATAGAAGGCGAATGTGGATTCCTTGCAGCAAACTTATACGCAAA
EST: gi|86086628|gb|DR382387.1|DR382387
EST:     TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCC                         ATCCGCAATAGAAGGCGAATGTGGATTCCTTGCAGCAAACTTATACGCAAA
genomic: TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCCgtaagtgtaa ... ttacttgcagATCCGCAATAGAAGGCGAATGTGGATTCCTTGCAGCAAACTTATACGCAAA
EST: gi|125039052|gb|EL111321.1|EL111321
EST:     CAAATCTACGAACATGAAATGTCTCACTGCTCC                         ATCCGCAATAGAAGGCGAATGTGGATT
genomic: CAAATCTACAAACATGAAATGTCTCACTGCTCCgtaagtgtaa ... ttacttgcagATCCGCAATAGAAGGCGAATGTGGATT
EST: gi|164118708|gb|ES014772.1|ES014772
EST:     TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCC                         ATCCGCAATAGAAGGCGAATGT
genomic: TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCCgtaagtgtaa ... ttacttgcagATCCGCAATAGAAGGCGAATGT
EST: gi|125198790|gb|EL213744.1|EL213744
EST:     TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCC                         ATCCGCAATAGAAGGCGGATGTGGA
genomic: TTCCTCGACCACATTATCAAATCTACAAACATGAAATGTCTCACTGCTCCgtaagtgtaa ... ttacttgcagATCCGCAATAGAAGGCGAATGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatcctgtagaaacgaaaaactcttcttactaattaatacttctttacttgcagATCCGCAATAGAAGGCGAATGTGGATTCCTTGCAGCAAACTTATACGCAAAAAGTGTATTTGGTGAGGATGCTCTTGTGAATGTGAGTATTGAGAAGCAA
                                        cttctttactt  CT-rich tract
                           ttactaattaatactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgtaaattcttctttcatcctgtagaaacgaaaaactcttcttactaattaatacttctttacttgcagATCCGCAATAGAAGGCGAATGTGGATTCCTTGCAGCAAACTTATACGCAAAAAGTGTATTTGGTGAGGATGCTCTTGTGAATGTGAGTATTGAGAAGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA