Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttataatcatatgagatacatatttccacaaaagaaaacaactattacatgtgttacattatatcttagtagttctacctgaagtaactcaaggatttctgttgctttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG

Basic information

species Arabidopsis thaliana
transcript AT4G27040.3
intron # 7
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|116404460|gb|EG447052.1|EG447052
EST:     TACCCACAGAGCTGAACAAAGACCATAGCCAGATTTTGGAGTTGGCTCAG                         GGTCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404485|gb|EG447077.1|EG447077
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404471|gb|EG447063.1|EG447063
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404463|gb|EG447055.1|EG447055
EST:     GAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: GAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404479|gb|EG447071.1|EG447071
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404489|gb|EG447081.1|EG447081
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404476|gb|EG447068.1|EG447068
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404481|gb|EG447073.1|EG447073
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         G-CCAAAGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404466|gb|EG447058.1|EG447058
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAG-GGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404478|gb|EG447070.1|EG447070
EST:     ACCCACAGAGCTGAACAAAGACCATAACCAGATTTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGGATTGTGGAAGAAGTACAAAGACGCCTCTCATGGAC
genomic: ACCCACAGAGCTGAACAAAGACCATAACCAGATTTT-GGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTG-ATTGTGGAAGAGGTACAAAGACGCCTCTCATGGAC
EST: gi|116404474|gb|EG447066.1|EG447066
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|164164851|gb|ES102592.1|ES102592
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGG
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGG
EST: gi|116404364|gb|EG446956.1|EG446956
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAAGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404356|gb|EG446948.1|EG446948
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404487|gb|EG447079.1|EG447079
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404482|gb|EG447074.1|EG447074
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTGTGGAGTTGGCTCAG                         GGCCAACGCTTTGTGATTGTGGAAGAG
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAG
EST: gi|116404362|gb|EG446954.1|EG446954
EST:     ACCCACAGAGCTGAACAAAGAC-ATAACCAGATTTTTGGAGTTGGCTCAG                         GGCCAAGGCTTT
genomic: ACCCACAGAGCTGAACAAAGACCATAACCAGATTTT-GGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTT
EST: gi|116404459|gb|EG447051.1|EG447051
EST:     TACCCACAGAGCTGAACAAAGACCATAGCCAGATTTTGGAGTTGGCTCAG                         GGTCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404477|gb|EG447069.1|EG447069
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404467|gb|EG447059.1|EG447059
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
EST: gi|116404455|gb|EG447047.1|EG447047
EST:     TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAG                         GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA
genomic: TACCCACAGAGCTGAACAAAGACCATAACCAGATTTTGGAGTTGGCTCAGgttataatca ... ttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcttagtagttctacctgaagtaactcaaggatttctgttgctttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG
                    aagtaac  putative branch site (score: 2)
                                  tttctgttgctttcc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttataatcatatgagatacatatttccacaaaagaaaacaactattacatgtgttacattatatcttagtagttctacctgaagtaactcaaggatttctgttgctttccgcacagGGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA