Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTCGACGAGTCAGTCTATAACTGGGAAACGAAAAGGTCCTGAAGTTTCTGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttctgtgcctacatgtttattacatttgatgtagctcttaaactaatattgtgacttttttttttccttggaccag

Basic information

species Arabidopsis thaliana
transcript AT3G54060.1
intron # 3
splice site 5'
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|116412416|gb|EG455008.1|EG455008
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412527|gb|EG455119.1|EG455119
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412649|gb|EG455241.1|EG455241
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412383|gb|EG454975.1|EG454975
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412627|gb|EG455219.1|EG455219
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116384859|gb|EG427451.1|EG427451
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412461|gb|EG455053.1|EG455053
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412561|gb|EG455153.1|EG455153
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGATCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412294|gb|EG454886.1|EG454886
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412361|gb|EG454953.1|EG454953
EST:     GGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: GGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412339|gb|EG454931.1|EG454931
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATTTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412605|gb|EG455197.1|EG455197
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412638|gb|EG455230.1|EG455230
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412616|gb|EG455208.1|EG455208
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412483|gb|EG455075.1|EG455075
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412538|gb|EG455130.1|EG455130
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412516|gb|EG455108.1|EG455108
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116385105|gb|EG427697.1|EG427697
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116385102|gb|EG427694.1|EG427694
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412549|gb|EG455141.1|EG455141
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGATCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116384864|gb|EG427456.1|EG427456
EST:     AACACGCTCCTCTCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: AACA-GCTCCTC-CGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412472|gb|EG455064.1|EG455064
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412505|gb|EG455097.1|EG455097
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116384867|gb|EG427459.1|EG427459
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412583|gb|EG455175.1|EG455175
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116394638|gb|EG437230.1|EG437230
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412572|gb|EG455164.1|EG455164
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412494|gb|EG455086.1|EG455086
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116384869|gb|EG427461.1|EG427461
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412272|gb|EG454864.1|EG454864
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412327|gb|EG454919.1|EG454919
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412594|gb|EG455186.1|EG455186
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412350|gb|EG454942.1|EG454942
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTG                         GGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG
EST: gi|116412316|gb|EG454908.1|EG454908
EST:     TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAGCTG                         GGACTAATAAGTTGCCACAAGCTGATAAAACAGCTAACAATTTCACATCTG
genomic: TGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttct ... cttggaccagGGACTAATAAGTTGCCACAAGCTGATAAAGCAGCTAACAATTTCACATCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTTCGACGAGTCAGTCTATAACTGGGAAACGAAAAGGTCCTGAAGTTTCTGTAACAGCTCCTCCGGTATCTAGGAAATCAAGGATCACTAGAGCAACTGgtatgtttctgtgcctacatgtttattacatttgatgtagctcttaaactaatattgtgacttttttttttccttggaccag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA