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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTTTACCTTCTCTTGCACAAAAACTAATGGACCATGGTCTCCCTTCTGATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaaccaaaccgtagtctcttcatacgaaccaactctcaagagggggtatgttaacttgagtttttaaggcttttgggatattgtgcag

Basic information

species Arabidopsis thaliana
transcript AT5G40850.1
intron # 5
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|124935379|gb|EL012369.1|EL012369
EST:     TACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
genomic: TACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
EST: gi|116471006|gb|EG513598.1|EG513598
EST:     ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
genomic: ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
EST: gi|124915684|gb|EH989558.1|EH989558
EST:     CTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
genomic: CTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
EST: gi|116471098|gb|EG513690.1|EG513690
EST:     ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
genomic: ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
EST: gi|164142672|gb|ES020164.1|ES020164
EST:     ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAAC
genomic: ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAAC
EST: gi|125079085|gb|EL141224.1|EL141224
EST:     GTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
genomic: GTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
EST: gi|86080219|gb|DR375976.1|DR375976
EST:     ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
genomic: ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
EST: gi|86085644|gb|DR381403.1|DR381403
EST:     ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
genomic: ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATTG
EST: gi|124995142|gb|EL067411.1|EL067411
EST:     TTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGACTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATT
genomic: TTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAG-CTTAAAGATTTTGCAACTGAGATTCAGTCAGCTGGATT
EST: gi|124824307|gb|EH909173.1|EH909173
EST:     ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACA                         GTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAG
genomic: ATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaacc ... tattgtgcagGTTTTTGCTGAGCTTAAAGATTTTGCAACTGAGATTCAGTCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTTTACCTTCTCTTGCACAAAAACTAATGGACCATGGTCTCCCTTCTGATACACCAGCTGTTGCGGTTGAACGTGGAACCACTCCTCTACAGCGTACAgtaagcaaccaaaccgtagtctcttcatacgaaccaactctcaagagggggtatgttaacttgagtttttaaggcttttgggatattgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC