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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaacacttttatagctttttctttaagtctgcattcttttgttgaattttcatgtggtgacttatttcatttgcttctag

Basic information

species Arabidopsis thaliana
transcript AT4G39460.2
intron # 8
splice site 5'
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|86037549|gb|DR333304.1|DR333304
EST:     GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCA                         GGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
genomic: GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
EST: gi|86037538|gb|DR333293.1|DR333293
EST:     GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCA                         GGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
genomic: GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
EST: gi|86037540|gb|DR333295.1|DR333295
EST:     GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCA                         GGATACCGGTCCTTCCTTTTGCGAGATT-GCCATTTGATGCTATACAGTTC
genomic: GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
EST: gi|86037555|gb|DR333310.1|DR333310
EST:     GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCA                         GGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
genomic: GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
EST: gi|86082868|gb|DR378627.1|DR378627
EST:     GTGCTGTTCGAATGA-TGCATCAAAAGAGGGATTTAGGGGTCTCTATGCA                         GGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
genomic: GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
EST: gi|86037534|gb|DR333289.1|DR333289
EST:     GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCN                         NNATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
genomic: GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
EST: gi|86037548|gb|DR333303.1|DR333303
EST:     GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCA                         GGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
genomic: GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
EST: gi|164126585|gb|ES128966.1|ES128966
EST:     GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCA                         GGATACCGGTCCTTTCCTTTTGCGAGATTTGCCATTTG
genomic: GTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTT-CCTTTTGCGAGATTTGCCATTTG
EST: gi|124984808|gb|EL057439.1|EL057439
EST:     CAAAAGAGGGATTTAGGGGTCTCTATGCA                         GGATACCGGCCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC
genomic: CAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaaca ... ttgcttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCTGTTCGAATGATTGCATCAAAAGAGGGATTTAGGGGTCTCTATGCAgttagtaacacttttatagctttttctttaagtctgcattcttttgttgaattttcatgtggtgacttatttcatttgcttctag

- - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG