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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggttcttcgatcgctgaaattcctcaaatctcatttaacttttgcatttgattgtaatacaaacttttcatgtttaattgtctttcagGTGCTATTCAGTTTGCAAGAACAGAAGGGATCATACCCGCACCAGAACCGACCCACGCCATTGCTGCAACCATAAGAGAGGCTCTCCGATGTAAAGAGAC

Basic information

species Arabidopsis thaliana
transcript AT5G38530.1
intron # 5
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|125154342|gb|EL185010.1|EL185010
EST:     ACAAGGATTCATGGAAGCAATTTCAATTCCTCAAATTGAGTGTTTCCAAG                         GTGCTATTCAGTTTGCAA
genomic: ACAAGGATTCATGGAAGCAATTTCAATTCCTCAAATTGAGTGTTTCCAAGgtggttcttc ... tgtctttcagGTGCTATTCAGTTTGCAA
EST: gi|116461702|gb|EG504294.1|EG504294
EST:     ACAAGGATTCATGGAAGCAATTTCAATTCCTCAAATTGAGTGTTTCCAAG                         GTGCTATTCAGTTTGCAAGAACAGAAGGGATCATACCCGCACCAGAACCGA
genomic: ACAAGGATTCATGGAAGCAATTTCAATTCCTCAAATTGAGTGTTTCCAAGgtggttcttc ... tgtctttcagGTGCTATTCAGTTTGCAAGAACAGAAGGGATCATACCCGCACCAGAACCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaacttttgcatttgattgtaatacaaacttttcatgtttaattgtctttcagGTGCTATTCAGTTTGCAAGAACAGAAGGGATCATACCCGCACCAGAACCGACCCACGCCATTGCTGCAACCATAAGAGAGGCTCTCCGATGTAAAGAGAC
                                            ttgtctttc  CT-rich tract
                               ttttcatgtttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggttcttcgatcgctgaaattcctcaaatctcatttaacttttgcatttgattgtaatacaaacttttcatgtttaattgtctttcagGTGCTATTCAGTTTGCAAGAACAGAAGGGATCATACCCGCACCAGAACCGACCCACGCCATTGCTGCAACCATAAGAGAGGCTCTCCGATGTAAAGAGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA