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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatatatacataccttgaggataataaaatctgtatcttttgttgttggatcagttataagttatgttcttatgcttgcagGGCCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACTCAGACCTTGCACAATTTGAATGAAG

Basic information

species Arabidopsis thaliana
transcript AT4G22740.1
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|116464062|gb|EG506654.1|EG506654
EST:     GCGGGAAGCAGCGCATATGATTTCAAGAGGCCTTCATAACAAG                         GGCCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACT
genomic: GCGGGAAGCAGCGCATATGATTTCAAGAGGCCTTCATAACAAGgtacatatat ... atgcttgcagGGCCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACT
EST: gi|86077542|gb|DR373299.1|DR373299
EST:     CTGCAACGCGGGAAGCAGCGCATATGATTTCAAGAGGCCTTCATAACAAG                         GGTCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACT
genomic: CTGCAACGCGGGAAGCAGCGCATATGATTTCAAGAGGCCTTCATAACAAGgtacatatat ... atgcttgcagGGCCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACT
EST: gi|124742475|gb|EH833637.1|EH833637
EST:     AAGCAGCGCATATGATTTCAAGAGGCCTTCATAACAAG                         GGCCACACAGTTGCGCGTAAACTTAACTCAGATGG
genomic: AAGCAGCGCATATGATTTCAAGAGGCCTTCATAACAAGgtacatatat ... atgcttgcagGGCCACACAGTTGCGCGTAAACTTAACTCAGATGG
EST: gi|124733673|gb|EH825075.1|EH825075
EST:     AAGCAGTCGCATATGATTTCAAGAGGCCTTCATAACAAG                         GGCCACACAGTTGCGCGTAAACTTAACTCAGATGG
genomic: AAGCAG-CGCATATGATTTCAAGAGGCCTTCATAACAAGgtacatatat ... atgcttgcagGGCCACACAGTTGCGCGTAAACTTAACTCAGATGG
EST: gi|125046863|gb|EL119132.1|EL119132
EST:     GAGGCCTTCATAACAAG                         GGCCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACT
genomic: GAGGCCTTCATAACAAGgtacatatat ... atgcttgcagGGCCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatctgtatcttttgttgttggatcagttataagttatgttcttatgcttgcagGGCCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACTCAGACCTTGCACAATTTGAATGAAG
                                        ttcttat  CT-rich tract
                            ttataagttatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatatatacataccttgaggataataaaatctgtatcttttgttgttggatcagttataagttatgttcttatgcttgcagGGCCACACAGTTGCGCGTAAACTTAACTCAGATGGCCGTGTTGATACAACTCAGACCTTGCACAATTTGAATGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG