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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaatgcaaccttccttttttgcttcatcaatgcaaatattcaaattcttccaccagcgttttgtggtctaattgctcagtttctgaatgttattgtttacttcttctttattggttttttctatagTTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTACAAAGTTTGCCGGATTCTCCCGGGATCCGTTCTACTGTCTGGAAG

Basic information

species Arabidopsis thaliana
transcript AT1G04830.2
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|86072102|gb|DR367859.1|DR367859
EST:     TTGGTCCTTCCGCCGAAGACTTTTCCCGCCAGGCTCATGTCTCAGCGGAG                         TTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTACAA
genomic: TTGGTCCTTCCGCCGAAGACTTTTCCCGCCAGGCTCATGTCTCAGCGGAGgtcaatgcaa ... ttttctatagTTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTACAA
EST: gi|19876213|gb|AU237044.1|AU237044
EST:     TTGGTCCTTCCGCCGAAGACTTTTCCCGCCAGGCTCATGTCTCAGCGGAG                         TTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTACAA
genomic: TTGGTCCTTCCGCCGAAGACTTTTCCCGCCAGGCTCATGTCTCAGCGGAGgtcaatgcaa ... ttttctatagTTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTACAA
EST: gi|86072103|gb|DR367860.1|DR367860
EST:     TTGGTCCTTCCGCCGAAGACTTTTCCCGCCAGGCTCATGTCTCAGCGGAG                         TTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTANNN
genomic: TTGGTCCTTCCGCCGAAGACTTTTCCCGCCAGGCTCATGTCTCAGCGGAGgtcaatgcaa ... ttttctatagTTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctcagtttctgaatgttattgtttacttcttctttattggttttttctatagTTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTACAAAGTTTGCCGGATTCTCCCGGGATCCGTTCTACTGTCTGGAAG
                        tttacttcttctttat  CT-rich tract
              aatgttattgttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcaatgcaaccttccttttttgcttcatcaatgcaaatattcaaattcttccaccagcgttttgtggtctaattgctcagtttctgaatgttattgtttacttcttctttattggttttttctatagTTGTCGAAGAAGGTGATCAATATGAAGGAATTGAGGAGTCTAGCTTTACAAAGTTTGCCGGATTCTCCCGGGATCCGTTCTACTGTCTGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG