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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcaattcgtctctctttgaattcgatttctctaatttcgattaatcaaaacccctaaagttttcgaatttttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTTGATGTTGATTCAGAGGATGTTCAAGTGTATGTGAAGTATTTTGATATCA

Basic information

species Arabidopsis thaliana
transcript AT3G24730.1
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|86025275|gb|DR321028.1|DR321028
EST:     TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
genomic: TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
EST: gi|86025278|gb|DR321031.1|DR321031
EST:     TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
genomic: TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
EST: gi|86025276|gb|DR321029.1|DR321029
EST:     TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
genomic: TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
EST: gi|124760575|gb|EH850705.1|EH850705
EST:     CATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTT
genomic: CATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTT
EST: gi|86076496|gb|DR372253.1|DR372253
EST:     TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
genomic: TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
EST: gi|86025279|gb|DR321032.1|DR321032
EST:     TACGATKTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
genomic: TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
EST: gi|86025282|gb|DR321035.1|DR321035
EST:     TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
genomic: TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
EST: gi|86025281|gb|DR321034.1|DR321034
EST:     TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
genomic: TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
EST: gi|86025274|gb|DR321027.1|DR321027
EST:     TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATC                         CTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT
genomic: TACGATTTGGTCGTTCCTCCGACGCCGTTTGTCTTCAGCATGATGAAATCgtattcaatt ... ttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctctaatttcgattaatcaaaacccctaaagttttcgaatttttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTTGATGTTGATTCAGAGGATGTTCAAGTGTATGTGAAGTATTTTGATATCA
                          ccctaaa  putative branch site (score: 3)
                                          tttttcttttc  putative PPT
      taatttcgattaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattcaattcgtctctctttgaattcgatttctctaatttcgattaatcaaaacccctaaagttttcgaatttttcttttcagCTTGCGAAATCGGTGAGAGATGTTTCGAAATTTGCTAAGGTAGCTTTGGTTGATGTTGATTCAGAGGATGTTCAAGTGTATGTGAAGTATTTTGATATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG