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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaacactacatcttcattctttctctttcttattctcattcattaactcgaaaaaaaaaaaactacagGTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTACCTCCAAAGAGAGTATCAGCTCAATACCATCCGATCCAGTAGAAACCTT

Basic information

species Arabidopsis thaliana
transcript AT4G21790.1
intron # 10
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|86078543|gb|DR374300.1|DR374300
EST:     TAACACTTGATGTTCTTGATCATCCGGTTCTGAACTTAATCTACTATATG                         GTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTA
genomic: TAACACTTGATGTTCTTGATCATCCGGTTCTGAACTTAATCTACTATATGgtaagtaaca ... aaaactacagGTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTA
EST: gi|124755766|gb|EH845896.1|EH845896
EST:     CTTAATCTACTATATG                         GTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTA
genomic: CTTAATCTACTATATGgtaagtaaca ... aaaactacagGTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTA
EST: gi|124885500|gb|EH964402.1|EH964402
EST:     CACTTGATGTTCTTGATCATCCGGTTCTGAACTTAATCTACTATATG                         GTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTA
genomic: CACTTGATGTTCTTGATCATCCGGTTCTGAACTTAATCTACTATATGgtaagtaaca ... aaaactacagGTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTA
EST: gi|124854837|gb|EH939274.1|EH939274
EST:     CTTGATCATCCGGTTCTGAACTTAATCTACTATATG                         GTGGTAGAAGTACTTCCATCGGCACT
genomic: CTTGATCATCCGGTTCTGAACTTAATCTACTATATGgtaagtaaca ... aaaactacagGTGGTAGAAGTACTTCCATCGGCACT
EST: gi|164186956|gb|ES024350.1|ES024350
EST:     TAACACTCGATGTTCTTGATCATCCGGTTCTGAACTTAATCTACTATATG                         GTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTA
genomic: TAACACTTGATGTTCTTGATCATCCGGTTCTGAACTTAATCTACTATATGgtaagtaaca ... aaaactacagGTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattctttctctttcttattctcattcattaactcgaaaaaaaaaaaactacagGTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTACCTCCAAAGAGAGTATCAGCTCAATACCATCCGATCCAGTAGAAACCTT
                           cattaac  putative branch site (score: 2)
                            attaactcgaaaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaacactacatcttcattctttctctttcttattctcattcattaactcgaaaaaaaaaaaactacagGTGGTAGAAGTACTTCCATCGGCACTAGTCCTCTTCATTCTCCGAAAGCTACCTCCAAAGAGAGTATCAGCTCAATACCATCCGATCCAGTAGAAACCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA