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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcttttctttagccatctctgtaatttctgcaaatttgtggctcttcctaacctttactttgcttttctgcgcagGGGGTTCTACACTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAAGGTGGAAGTCCGATTATTTGAGAAACTCTTTAACTCCGAG

Basic information

species Arabidopsis thaliana
transcript AT1G25350.2
intron # 19
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|125170896|gb|EL194116.1|EL194116
EST:     CGTGAGATTCATGCGGAATATGACCCCGAGAAAAAGTCAAAGCCAAAG                         GGGGTTCTACACTGGGTCGCTGAATCTTCCC-AGGAGAAGAGCCCATAAAG
genomic: CGTGAGATTCATGCGGAATATGACCCCGAGAAAAAGTCAAAGCCAAAGgtcttttctt ... ttctgcgcagGGGGTTCTACACTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAAG
EST: gi|86087687|gb|DR383446.1|DR383446
EST:     TTCGTGAGATTCATGCGGAATATGACCCCGAGAAAAAGTCAAAGCCAAAG                         GGGGTTTTACACTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAAG
genomic: TTCGTGAGATTCATGCGGAATATGACCCCGAGAAAAAGTCAAAGCCAAAGgtcttttctt ... ttctgcgcagGGGGTTCTACACTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAAG
EST: gi|124949072|gb|EL024737.1|EL024737
EST:     CGAGAAAAAGTCAAAGCCAAAG                         GGGGTTCTACACTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAAG
genomic: CGAGAAAAAGTCAAAGCCAAAGgtcttttctt ... ttctgcgcagGGGGTTCTACACTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAAG
EST: gi|124716732|gb|EH808134.1|EH808134
EST:     ATTCATGCGGAATATGACCCCGAGAAAAAGTCAAAGCCAAAG                         GGGGTTCTACACTTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAA
genomic: ATTCATGCGGAATATGACCCCGAGAAAAAGTCAAAGCCAAAGgtcttttctt ... ttctgcgcagGGGGTTCTACAC-TGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatttctgcaaatttgtggctcttcctaacctttactttgcttttctgcgcagGGGGTTCTACACTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAAGGTGGAAGTCCGATTATTTGAGAAACTCTTTAACTCCGAG
                         tcctaac  putative branch site (score: 1)
                     ctcttcctaaccttta  CT-rich tract
           aaatttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcttttctttagccatctctgtaatttctgcaaatttgtggctcttcctaacctttactttgcttttctgcgcagGGGGTTCTACACTGGGTCGCTGAATCTTCCCCAGGAGAAGAGCCCATAAAGGTGGAAGTCCGATTATTTGAGAAACTCTTTAACTCCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG