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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgggcttttattgtcttgttactatcactccttgattttttaaaagggggattatctcattacaacttgtttcttggtttgcagCCAAAATAGTCTTTGGATCTGGCTCACTTGTTGGGAGGTTTCTTTCTCTGCCTACATTTGGTCAAATAGGTACTGGTGGGAGGCTTCTGCCACCACCTCT

Basic information

species Arabidopsis thaliana
transcript AT3G03610.1
intron # 3
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|86038994|gb|DR334749.1|DR334749
EST:     CTGGACGTTAATCTTTTCTCAGTTGATTGCACAGTGGGCTCAGTGGATAG                         CCAAAATAGTCTTTGGATCTGGCTCACTTGTTGGGAGGTTTCTTTCTCTGC
genomic: CTGGACGTTAATCTTTTCTCAGTTGATTGCACAGTGGGCTCAGTGGATAGgttgggcttt ... tggtttgcagCCAAAATAGTCTTTGGATCTGGCTCACTTGTTGGGAGGTTTCTTTCTCTGC
EST: gi|125103876|gb|EL158120.1|EL158120
EST:     TGGACGTTAATCTTTTCTCAGTTGATTTGCACAGTGGGCTCAGTGGATAG                         CCAAAATAGTCTTTGGATCTGGCTCACTTGTTGG
genomic: TGGACGTTAATCTTTTCTCAGTTGA-TTGCACAGTGGGCTCAGTGGATAGgttgggcttt ... tggtttgcagCCAAAATAGTCTTTGGATCTGGCTCACTTGTTGG
EST: gi|86038992|gb|DR334747.1|DR334747
EST:     CTGGACGTTAATCTTTTCTCAGTTGATTGCACAGTGGGCTCAGTGGATAG                         CCAAAATAGTCTTTTGGATCTG-CTTCACTTGGTNGGGAGGTT-CTTTCTC
genomic: CTGGACGTTAATCTTTTCTCAGTTGATTGCACAGTGGGCTCAGTGGATAGgttgggcttt ... tggtttgcagCCAAAATAGTCTTT-GGATCTGGCT-CACTTGTT-GGGAGGTTTCTTTCTC
EST: gi|124773692|gb|EH863821.1|EH863821
EST:     CTGGACGTTAATCTTTTCTCAGTTGATTGCACAGTGGGCTCAGTGGATAG                         CCAAAATAGTCTTTGGATCTGG
genomic: CTGGACGTTAATCTTTTCTCAGTTGATTGCACAGTGGGCTCAGTGGATAGgttgggcttt ... tggtttgcagCCAAAATAGTCTTTGGATCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttgattttttaaaagggggattatctcattacaacttgtttcttggtttgcagCCAAAATAGTCTTTGGATCTGGCTCACTTGTTGGGAGGTTTCTTTCTCTGCCTACATTTGGTCAAATAGGTACTGGTGGGAGGCTTCTGCCACCACCTCT
 ccttgat  putative branch site (score: 5)
                                    cttgtttctt  putative PPT
     attttttaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgggcttttattgtcttgttactatcactccttgattttttaaaagggggattatctcattacaacttgtttcttggtttgcagCCAAAATAGTCTTTGGATCTGGCTCACTTGTTGGGAGGTTTCTTTCTCTGCCTACATTTGGTCAAATAGGTACTGGTGGGAGGCTTCTGCCACCACCTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG