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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattattctatcactattcaagccttgtttaaaaagttctattcaatctttgccaaagtggattttcatacttgtcttctagagaaatctcaatttcacaaaaatatgtagcagtggattattgggtttttggctttgctgtagGTTCATTTCTTCTTTTCAACTCAATTTCCGAAGCAGCAACCAACTCTGATGCTGCAAAGTTGTCAG

Basic information

species Arabidopsis thaliana
transcript AT5G42470.1
intron # 10
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|124877654|gb|EH957091.1|EH957091
EST:     TTTGCCGTAAGGCTACATTCCTTAATGCCTCTGGACAATTTACTTTCATG                         GTTCATTTCTTCTTTTCAACTCAATTTCCGAAGCAGCAACCAACT
genomic: TTTGCCGTAAGGCTACATTCCTTAATGCCTCTGGACAATTTACTTTCATGgtaattattc ... tttgctgtagGTTCATTTCTTCTTTTCAACTCAATTTCCGAAGCAGCAACCAACT
EST: gi|164107783|gb|ES083705.1|ES083705
EST:     ACAATTTACTTTCATG                         GTTCATTTCTTCTTTTCAACTCAATTTCCGAAGCAGCAACCAACTCTGATG
genomic: ACAATTTACTTTCATGgtaattattc ... tttgctgtagGTTCATTTCTTCTTTTCAACTCAATTTCCGAAGCAGCAACCAACTCTGATG
EST: gi|163990342|gb|ES103094.1|ES103094
EST:     TTTGCCGTAAGGCTACATTCCTTAATGCCTCTGGACAATTTACTTTCATG                         GTTCATTTCTTCTTTTCAACTCAAT
genomic: TTTGCCGTAAGGCTACATTCCTTAATGCCTCTGGACAATTTACTTTCATGgtaattattc ... tttgctgtagGTTCATTTCTTCTTTTCAACTCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaatttcacaaaaatatgtagcagtggattattgggtttttggctttgctgtagGTTCATTTCTTCTTTTCAACTCAATTTCCGAAGCAGCAACCAACTCTGATGCTGCAAAGTTGTCAG
                                            ctttgct  CT-rich tract
          aaaaatatgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattattctatcactattcaagccttgtttaaaaagttctattcaatctttgccaaagtggattttcatacttgtcttctagagaaatctcaatttcacaaaaatatgtagcagtggattattgggtttttggctttgctgtagGTTCATTTCTTCTTTTCAACTCAATTTCCGAAGCAGCAACCAACTCTGATGCTGCAAAGTTGTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG