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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcaataagcttaaacgcattcttcttcgtttctaaactttttgttttgttttctatctgttatgtaactacatattccattcaatgtagGAGATTCCTTGGAATGGAAAACGCCTCAAGGCATATTATTGTGCTGGTGGTATTATTTGGATATTCTGCGGTATATCAATACTCTTATTGCCCAGAAGCA

Basic information

species Arabidopsis thaliana
transcript AT2G44280.1
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|116406008|gb|EG448600.1|EG448600
EST:     TTCCTGCAATAATCTACGTATGCAGCTTCGTTGTATCAGTTATGCTTCAG                         GAGATTCCTTGGAATGGAAAACGCCTCAAGGCATATTATTGTGCTGGTGGT
genomic: TTCCTGCAATAATCTACGTATGCAGCTTCGTTGTATCAGTTATGCTTCAGgttgcaataa ... ttcaatgtagGAGATTCCTTGGAATGGAAAACGCCTCAAGGCATATTATTGTGCTGGTGGT
EST: gi|116399887|gb|EG442479.1|EG442479
EST:     TTCCTGCAATAATCTACGTATGCAGCTTCGTTGTATCAGTTATGCTTCAG                         GAGATTCCTTGGAATGGAAAACGCCTCAAGACATATTATTGTGCTGGTGGT
genomic: TTCCTGCAATAATCTACGTATGCAGCTTCGTTGTATCAGTTATGCTTCAGgttgcaataa ... ttcaatgtagGAGATTCCTTGGAATGGAAAACGCCTCAAGGCATATTATTGTGCTGGTGGT
EST: gi|116399886|gb|EG442478.1|EG442478
EST:     TTCCTGCAATAATCTACGTATGCAGCTTCGTTGTATCAGTTATGCTTCAG                         GAGATTCCTTGGAATGGAAAACGCCTCAAGACCATATTATTGTGCTGGTGG
genomic: TTCCTGCAATAATCTACGTATGCAGCTTCGTTGTATCAGTTATGCTTCAGgttgcaataa ... ttcaatgtagGAGATTCCTTGGAATGGAAAACGCCTCAAG-GCATATTATTGTGCTGGTGG
EST: gi|116406007|gb|EG448599.1|EG448599
EST:     TTCCTGCAATAATCTACGTATGCAGCTTCGTTGTATCAGTTATGCTTCAG                         GAGATTCCTTGGAATGGAAAACGCCTCAAGGCATATTATTGTGCTGGTGGT
genomic: TTCCTGCAATAATCTACGTATGCAGCTTCGTTGTATCAGTTATGCTTCAGgttgcaataa ... ttcaatgtagGAGATTCCTTGGAATGGAAAACGCCTCAAGGCATATTATTGTGCTGGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactttttgttttgttttctatctgttatgtaactacatattccattcaatgtagGAGATTCCTTGGAATGGAAAACGCCTCAAGGCATATTATTGTGCTGGTGGTATTATTTGGATATTCTGCGGTATATCAATACTCTTATTGCCCAGAAGCA
                                        ttccattc  CT-rich tract
         ttttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgcaataagcttaaacgcattcttcttcgtttctaaactttttgttttgttttctatctgttatgtaactacatattccattcaatgtagGAGATTCCTTGGAATGGAAAACGCCTCAAGGCATATTATTGTGCTGGTGGTATTATTTGGATATTCTGCGGTATATCAATACTCTTATTGCCCAGAAGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC