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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGAAAATGTGATGAATACTTACAACGCTAGCCTCACCGCTCCTCCTCCGGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagattttgttgtttttaagctgttctaaattggaatgattaggttggttctccacattattgattgaagtagctctagctcttgtttgcttcttagatcttagtgcacatattaggcttattagaatccaaatctgtcacttgagaactaaaagagcagtgctcttatttttcag

Basic information

species Arabidopsis thaliana
transcript AT3G54060.1
intron # 2
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|116412527|gb|EG455119.1|EG455119
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGCCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412649|gb|EG455241.1|EG455241
EST:     ATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: ATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412627|gb|EG455219.1|EG455219
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412461|gb|EG455053.1|EG455053
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACGGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412561|gb|EG455153.1|EG455153
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412605|gb|EG455197.1|EG455197
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412638|gb|EG455230.1|EG455230
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGCATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412616|gb|EG455208.1|EG455208
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412483|gb|EG455075.1|EG455075
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412538|gb|EG455130.1|EG455130
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGCCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412516|gb|EG455108.1|EG455108
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACGGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412549|gb|EG455141.1|EG455141
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412472|gb|EG455064.1|EG455064
EST:     TTCAGCTCCAACTTCTCAACAGAAAAATCACGGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: TTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412505|gb|EG455097.1|EG455097
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACGGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412583|gb|EG455175.1|EG455175
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412572|gb|EG455164.1|EG455164
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412494|gb|EG455086.1|EG455086
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
EST: gi|116412594|gb|EG455186.1|EG455186
EST:     GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAG                         GCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA
genomic: GGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagat ... tatttttcagGCTTATCTCAGTACAACACACTAAATGGTATGTCAGTATCATTGCTTGGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGAAAATGTGATGAATACTTACAACGCTAGCCTCACCGCTCCTCCTCCGGCTTCAGCTCCAACTTCTCAACAGAAAAATCACAGTATCTCTTCTTCAGgtttggagattttgttgtttttaagctgttctaaattggaatgattaggttggttctccacattattgattgaagtagctctagctcttgtttgcttcttagatcttagtgcacatattaggcttattagaatccaaatctgtcacttgagaactaaaagagcagtgctcttatttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC