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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggtgttggtttcatatcacttggcgtttgttatgtgatttccctgtagtttatcggattgtgggaaaatgctgaagtgttttgtggtttgctttgcagGGTTTTGCAAATGATTCAACACCAGAAATCGGAGAGCAAAGTCTGAAATACATTGGGAGGATATTTTTTGCATTTGTTTTGATGTTTATTCTTGGTGGCC

Basic information

species Arabidopsis thaliana
transcript AT5G37480.1
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|125053620|gb|EL124640.1|EL124640
EST:     GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACG                         GGTTTTGCAAATGATTCAACACCAGAAATCGGAGAGCAAAG
genomic: GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACGgtaagtatct ... tgctttgcagGGTTTTGCAAATGATTCAACACCAGAAATCGGAGAGCAAAG
EST: gi|164224213|gb|EL972208.1|EL972208
EST:     GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACG                         GGTTTTGCAAAGGATTCAGCACCAGAAATCGGAGAGCAAAGTCTGAAATAC
genomic: GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACGgtaagtatct ... tgctttgcagGGTTTTGCAAATGATTCAACACCAGAAATCGGAGAGCAAAGTCTGAAATAC
EST: gi|164050735|gb|ES005962.1|ES005962
EST:     GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACG                         GGTTTTGCAAAGGATTCA
genomic: GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACGgtaagtatct ... tgctttgcagGGTTTTGCAAATGATTCA
EST: gi|164194396|gb|ES057420.1|ES057420
EST:     GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACG                         GGTTTTGCAAAGGATTCAGCACCAGAAA
genomic: GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACGgtaagtatct ... tgctttgcagGGTTTTGCAAATGATTCAACACCAGAAA
EST: gi|125252076|gb|EL266161.1|EL266161
EST:     GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACG                         GGTTTTGCAAATGATTCAACACCAGAAATCGGAGAGCAAAGTCT
genomic: GAACGGAGAAAAACAATCGACAACAGCGGTTTTCTTCTGTATTTTCGACGgtaagtatct ... tgctttgcagGGTTTTGCAAATGATTCAACACCAGAAATCGGAGAGCAAAGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtagtttatcggattgtgggaaaatgctgaagtgttttgtggtttgctttgcagGGTTTTGCAAATGATTCAACACCAGAAATCGGAGAGCAAAGTCTGAAATACATTGGGAGGATATTTTTTGCATTTGTTTTGATGTTTATTCTTGGTGGCC
                                           tttgcttt  CT-rich tract
     tttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atggtgttggtttcatatcacttggcgtttgttatgtgatttccctgtagtttatcggattgtgggaaaatgctgaagtgttttgtggtttgctttgcagGGTTTTGCAAATGATTCAACACCAGAAATCGGAGAGCAAAGTCTGAAATACATTGGGAGGATATTTTTTGCATTTGTTTTGATGTTTATTCTTGGTGGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttttg