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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactaaatatgtcatcatgaaaagaaaaaactatatatcattatgatttcaatatatgttgactaattaattagtgaacacataatttttgtttgtatagGGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAGAAAGATGCGGCTCCAAACGCAAACTCGGCTCGAGGATTTCCAGTGATCG

Basic information

species Arabidopsis thaliana
transcript AT3G32980.1
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|116456495|gb|EG499087.1|EG499087
EST:     CACTTCCACGACTGTTTCGTCAAT                         GGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGGG
genomic: CACTTCCACGACTGTTTCGTCAATgtaagatatt ... gtttgtatagGGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG
EST: gi|116439430|gb|EG482022.1|EG482022
EST:     GTATCGCTGCAAGCATCCTTCGTCTTCACTTCCACGACTGTTTCGTCAAT                         GGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG
genomic: GTATCGCTGCAAGCATCCTTCGTCTTCACTTCCACGACTGTTTCGTCAATgtaagatatt ... gtttgtatagGGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG
EST: gi|116420754|gb|EG463346.1|EG463346
EST:     GTATCGCTGCAAGCATCCTTCGTCTTCACTTCCACGACTGTTTCGTCAAT                         GGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG
genomic: GTATCGCTGCAAGCATCCTTCGTCTTCACTTCCACGACTGTTTCGTCAATgtaagatatt ... gtttgtatagGGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG
EST: gi|116439429|gb|EG482021.1|EG482021
EST:     GTATCGCTGCAAGCATCCTTCGTCTTCACTTCCACGACTGTTTCGTCAAT                         GGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG
genomic: GTATCGCTGCAAGCATCCTTCGTCTTCACTTCCACGACTGTTTCGTCAATgtaagatatt ... gtttgtatagGGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG
EST: gi|116422995|gb|EG465587.1|EG465587
EST:     GTATCGCTGCAAGCATCCTTCGTCTTCACTTCCACGACTGTTTCGTCAAT                         GGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG
genomic: GTATCGCTGCAAGCATCCTTCGTCTTCACTTCCACGACTGTTTCGTCAATgtaagatatt ... gtttgtatagGGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcaatatatgttgactaattaattagtgaacacataatttttgtttgtatagGGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAGAAAGATGCGGCTCCAAACGCAAACTCGGCTCGAGGATTTCCAGTGATCG
                                        tttttgttt  CT-rich tract
 taattaattagtgaac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tactaaatatgtcatcatgaaaagaaaaaactatatatcattatgatttcaatatatgttgactaattaattagtgaacacataatttttgtttgtatagGGCTGTGATGCATCGATCCTGTTAGACAACACAACATCCTTTCGAACAGAGAAAGATGCGGCTCCAAACGCAAACTCGGCTCGAGGATTTCCAGTGATCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
tactaaa
- - - - - - - -catgaaa
- - - - - - - - - - - - aaaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaacaca