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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcaatcttaaaagcctcttcctttataactaaattcagttacttttttttttgttactaattttttttttctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAGATGGCAATTTCGAGATACATCGAGAGATGTTACACCGGTTTAACTTCTG

Basic information

species Arabidopsis thaliana
transcript AT3G18035.1
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|125015809|gb|EL088078.1|EL088078
EST:     GTTTCAGTTATCTCCACATGTTTCAATGCCC-ACCCTCCTTACTACCGAA                         ATGATTTGCGCTGCGATTGC
genomic: GTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACT-CCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGC
EST: gi|116432402|gb|EG474994.1|EG474994
EST:     TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|116449357|gb|EG491949.1|EG491949
EST:     TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|125146367|gb|EL181137.1|EL181137
EST:     TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAA
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAA
EST: gi|124900009|gb|EH974627.1|EH974627
EST:     CCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: CCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|125078892|gb|EL141106.1|EL141106
EST:     CAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: CAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|116412455|gb|EG455047.1|EG455047
EST:     TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|116447901|gb|EG490493.1|EG490493
EST:     TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|116447365|gb|EG489957.1|EG489957
EST:     TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|164202385|gb|ES044651.1|ES044651
EST:     TGTTTCAGTCATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAA
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAA
EST: gi|125092906|gb|EL150694.1|EL150694
EST:     TTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: TTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|116432546|gb|EG475138.1|EG475138
EST:     TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|116432545|gb|EG475137.1|EG475137
EST:     TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: TGTTTCAGTTATCTCCACATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
EST: gi|47831608|gb|CK121292.1|CK121292
EST:     CATGTTTCAATGCCCCACCCTCCTTACTCCGAA                         ATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG
genomic: CATGTTTCAATGCCCCACCCTCCTTACTCCGAAgtaagttcaa ... ctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taactaaattcagttacttttttttttgttactaattttttttttctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAGATGGCAATTTCGAGATACATCGAGAGATGTTACACCGGTTTAACTTCTG
                             tactaat  putative branch site (score: 1)
             ttacttttttttttgt  CT-rich tract
     aaattcagttactttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcaatcttaaaagcctcttcctttataactaaattcagttacttttttttttgttactaattttttttttctgtgtgtagATGATTTGCGCTGCGATTGCGGCGTTAAACGAACCGGATGGTTCGAGCAAGATGGCAATTTCGAGATACATCGAGAGATGTTACACCGGTTTAACTTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG