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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaatataataaaccgaatatggttttgtcaatacaatttcaaaccggattggatacacatggcttttttgaatgacattggtatcacttatttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTAACGTATTGGTCACCGAACGTGAACATATTCCGAGATCCAAGATGGGGAA

Basic information

species Arabidopsis thaliana
transcript AT5G64570.1
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|164200078|gb|ES038563.1|ES038563
EST:     CTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAGCGTCGGATTAGCCGGACTA
genomic: CTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
EST: gi|116468744|gb|EG511336.1|EG511336
EST:     TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
genomic: TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
EST: gi|124836509|gb|EH920948.1|EH920948
EST:     TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
genomic: TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
EST: gi|164137912|gb|ES201143.1|ES201143
EST:     TCTCTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
genomic: TCTCTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
EST: gi|124786312|gb|EH875991.1|EH875991
EST:     TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAAC
genomic: TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAAC
EST: gi|125018487|gb|EL090756.1|EL090756
EST:     TCTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
genomic: TCTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
EST: gi|125307096|gb|EL321181.1|EL321181
EST:     CTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
genomic: CTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
EST: gi|124759038|gb|EH849168.1|EH849168
EST:     TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
genomic: TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
EST: gi|125003242|gb|EL075511.1|EL075511
EST:     TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAAGGGCAATGTACAACGTGGGATTAGCCGGACT
genomic: TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGA-GGGCAATGTACAACGTGGGATTAGCCGGACT
EST: gi|164211602|gb|ES170248.1|ES170248
EST:     TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTG
genomic: TACTCACCGCCGCTTCTTTCAACGTATCTCTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTG
EST: gi|125170392|gb|EL193894.1|EL193894
EST:     CTGTTTCAAGCCATTGGCAAG                         GTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA
genomic: CTGTTTCAAGCCATTGGCAAGgtaattaatt ... atttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggattggatacacatggcttttttgaatgacattggtatcacttatttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTAACGTATTGGTCACCGAACGTGAACATATTCCGAGATCCAAGATGGGGAA
                                          cttattt  CT-rich tract
                                           ttatttgttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaaatataataaaccgaatatggttttgtcaatacaatttcaaaccggattggatacacatggcttttttgaatgacattggtatcacttatttgttaagGTCGTCTCAACGGAAGCGAGGGCAATGTACAACGTGGGATTAGCCGGACTAACGTATTGGTCACCGAACGTGAACATATTCCGAGATCCAAGATGGGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - -aaccgaa
- - - - - - - - - - -ggttttg
- - - - - - - - - - - - - - -caataca
- - - - - - - - - - - - - - - - - - - -tcaaacc
- - - - - - - - - - - - - - - - - - - - - - - ggattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - -atacaca