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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtatctatcatctggattctttgtttggatataaacctgtataggaaaagatgcattgccatggacctaacaagcttttctgatctttgtatgctaaagGTTGACGCGTTTCCAATGACCGTGATGTTTGGAATGTGCTCTGTATTCCTTTTTGTGGCCTCTATATTGCAGAGGAGGTTGATGAATGTAGCCGAGATCC

Basic information

species Arabidopsis thaliana
transcript AT1G64650.2
intron # 4
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|164159095|gb|ES125846.1|ES125846
EST:     CCTTGTATTATACAAT                         GTTGACGCGTTTCCAATGACCGTGATGTTTGGAATGTGCTCTGTATTCCTT
genomic: CCTTGTATTATACAATgtgagttttc ... tatgctaaagGTTGACGCGTTTCCAATGACCGTGATGTTTGGAATGTGCTCTGTATTCCTT
EST: gi|125292655|gb|EL306740.1|EL306740
EST:     TTTTTTCCGTCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAAT                         GTTGACGCGTTTCCAATGACCGTGATGTTTGGAA
genomic: TTTTTTCCG-CATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttc ... tatgctaaagGTTGACGCGTTTCCAATGACCGTGATGTTTGGAA
EST: gi|124733003|gb|EH824405.1|EH824405
EST:     TTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTAATTATACAAT                         GTTGACGCGTTTCCAATGACC
genomic: TTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTA-TTATACAATgtgagttttc ... tatgctaaagGTTGACGCGTTTCCAATGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaagatgcattgccatggacctaacaagcttttctgatctttgtatgctaaagGTTGACGCGTTTCCAATGACCGTGATGTTTGGAATGTGCTCTGTATTCCTTTTTGTGGCCTCTATATTGCAGAGGAGGTTGATGAATGTAGCCGAGATCC
                                       tctttgt  CT-rich tract
                                         tttgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtatctatcatctggattctttgtttggatataaacctgtataggaaaagatgcattgccatggacctaacaagcttttctgatctttgtatgctaaagGTTGACGCGTTTCCAATGACCGTGATGTTTGGAATGTGCTCTGTATTCCTTTTTGTGGCCTCTATATTGCAGAGGAGGTTGATGAATGTAGCCGAGATCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC