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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttgtattcacctgtctatccaatttcattatcattgtaactaataaaaatctggtatttttttctaaattctcgaggatattatttggttacagGACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTGG

Basic information

species Arabidopsis thaliana
transcript AT3G60180.1
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|116486313|gb|EG528905.1|EG528905
EST:     ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAG                         GACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
genomic: ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAGgtgttgtatt ... ttggttacagGACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
EST: gi|86020351|gb|DR316097.1|DR316097
EST:     ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAG                         TACGAACATGAAAGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
genomic: ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAGgtgttgtatt ... ttggttacagGACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
EST: gi|116486310|gb|EG528902.1|EG528902
EST:     ATCGTCACATCGCCCTGATCATGGAAACTCCTATCGATGCTCCGAATAAG                         GACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
genomic: ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAGgtgttgtatt ... ttggttacagGACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
EST: gi|86020352|gb|DR316098.1|DR316098
EST:     ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAG                         GACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
genomic: ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAGgtgttgtatt ... ttggttacagGACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
EST: gi|116486314|gb|EG528906.1|EG528906
EST:     ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAG                         GACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG
genomic: ATCGTCACATCGCCTTGATCATGGAAACTCCTATCGATGCTCCGAATAAGgtgttgtatt ... ttggttacagGACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaataaaaatctggtatttttttctaaattctcgaggatattatttggttacagGACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTGG
                      ttctaaa  putative branch site (score: 2)
               tatttttttctaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgttgtattcacctgtctatccaatttcattatcattgtaactaataaaaatctggtatttttttctaaattctcgaggatattatttggttacagGACGAACATGAATGCCCTAGGTGGAAGAAATCAACTGTAGTTTTTGTGTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA