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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctgaatatgattattacttttcatgtctcattactatatacgttcttttcacttgtttcatgagttcatagtactttactgaacatacactatctttccatttagTTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAATTCGTGGCAGATGTCGTCCTATTTGCTACTG

Basic information

species Arabidopsis thaliana
transcript AT3G24170.3
intron # 9
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|116457529|gb|EG500121.1|EG500121
EST:     ATCTTGAAGGAAGGGGCGTTAATCTGCATCCACAAACAAGTTTGACTCAG                         TTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAA
genomic: ATCTTGAAGGAAGGGGCGTTAATCTGCATCCACAAACAAGTTTGACTCAGgtatctgaat ... ttccatttagTTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAA
EST: gi|152034638|gb|BP833544.2|BP833544
EST:     GGGCGTTAATCTGCATCCACAAACAAGTTTGACTCAG                         TTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAA
genomic: GGGCGTTAATCTGCATCCACAAACAAGTTTGACTCAGgtatctgaat ... ttccatttagTTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAA
EST: gi|163991226|gb|ES156813.1|ES156813
EST:     ATCTTGAAGGAAGGGGCGTTAATCTGCATCCACAAACAAGTTTGACTCAG                         TTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAA
genomic: ATCTTGAAGGAAGGGGCGTTAATCTGCATCCACAAACAAGTTTGACTCAGgtatctgaat ... ttccatttagTTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAA
EST: gi|124760853|gb|EH850983.1|EH850983
EST:     ATCTTGAAGGAAGGGGCGTTAATCTGCATCCACAAACAAGTTTGACTCAG                         TTGACAAAAACAGACCAGGGGATCAAAGTCATATCG
genomic: ATCTTGAAGGAAGGGGCGTTAATCTGCATCCACAAACAAGTTTGACTCAGgtatctgaat ... ttccatttagTTGACAAAAACAGACCAGGGGATCAAAGTCATATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgtttcatgagttcatagtactttactgaacatacactatctttccatttagTTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAATTCGTGGCAGATGTCGTCCTATTTGCTACTG
                                       ctatctttccattt  CT-rich tract
                     tacttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatctgaatatgattattacttttcatgtctcattactatatacgttcttttcacttgtttcatgagttcatagtactttactgaacatacactatctttccatttagTTGACAAAAACAGACCAGGGGATCAAAGTCATATCGTCCCATGGGGAGGAATTCGTGGCAGATGTCGTCCTATTTGCTACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG