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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctttgctaccaagaatctgtgtgaccttagtcactagacattttaggtgaatcaaaagatgtagaataagtttgacatgtatttgatgtctctatcagATTGGTATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTTAGTTGGAAAGATATTTATCGCAG

Basic information

species Arabidopsis thaliana
transcript AT4G21790.1
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|124828193|gb|EH913059.1|EH913059
EST:     TGGCTGTATATTTGGCTCAG                         ATTGGTATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTTG
genomic: TGGCTGTATATTTGGCTCAGgttcatatct ... tctctatcagATTGGTATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTTA
EST: gi|125293705|gb|EL307790.1|EL307790
EST:     AGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAG                         ATTGGTATCTGGGCATACA
genomic: AGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAGgttcatatct ... tctctatcagATTGGTATCTGGGCATACA
EST: gi|125073502|gb|EL137810.1|EL137810
EST:     GTCAACGTGGCTGTATATTTGGCTCAG                         ATTGGTAATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTT
genomic: GTCAACGTGGCTGTATATTTGGCTCAGgttcatatct ... tctctatcagATTGGT-ATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTT
EST: gi|86038983|gb|DR334738.1|DR334738
EST:     AGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAG                         ATTGGTATCTGGGCATACATCTGGGTA-ATGATAA-AGCACTGTGGAGTTA
genomic: AGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAGgttcatatct ... tctctatcagATTGGTATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTTA
EST: gi|125172890|gb|EL194816.1|EL194816
EST:     TATATTTGGCTCAG                         ATTGGTATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTTA
genomic: TATATTTGGCTCAGgttcatatct ... tctctatcagATTGGTATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTTA
EST: gi|124742254|gb|EH833416.1|EH833416
EST:     AGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAG                         ATTGGTATCTGGGCATACATCTGGGTACA
genomic: AGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAGgttcatatct ... tctctatcagATTGGTATCTGGGCATACATCTGGGTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggtgaatcaaaagatgtagaataagtttgacatgtatttgatgtctctatcagATTGGTATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTTAGTTGGAAAGATATTTATCGCAG
                                             tctctatc  CT-rich tract
                     aataagttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctttgctaccaagaatctgtgtgaccttagtcactagacattttaggtgaatcaaaagatgtagaataagtttgacatgtatttgatgtctctatcagATTGGTATCTGGGCATACATCTGGGTACATGATAACAGCACTGTGGAGTTAGTTGGAAAGATATTTATCGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - -accaaga
- - - - - - - - - - - - - - - - - - - - - - - - - -aatcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtttga