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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccgtttatagaatattgttttactgatttgttacaattggttacgtgactaagagctcttaatttcttttgatttatcttatggttggcatgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGAGTATCAACTGGGAGTATAGATAACCAGGATGTCTCTTCTAATCCGCCTT

Basic information

species Arabidopsis thaliana
transcript AT4G10000.2
intron # 2
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|86045285|gb|DR341040.1|DR341040
EST:     GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAG                         GTTGCAACTTCTTCATTTGGCATCTGTTGCAAGACTTCCATGGGGGATCTC
genomic: GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAGgttagtcctg ... atgaatacagGTTGCAACTTCTTCATT-GGCATCTGTTGCAAGACTTCCATGGGG-ATCTC
EST: gi|86045284|gb|DR341039.1|DR341039
EST:     GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAG                         GTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
genomic: GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAGgttagtcctg ... atgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
EST: gi|86045281|gb|DR341036.1|DR341036
EST:     GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAG                         GTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
genomic: GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAGgttagtcctg ... atgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
EST: gi|124916526|gb|EH990400.1|EH990400
EST:     GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAG                         GTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGA
genomic: GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAGgttagtcctg ... atgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGA
EST: gi|86045280|gb|DR341035.1|DR341035
EST:     GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAG                         GTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
genomic: GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAGgttagtcctg ... atgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
EST: gi|86045286|gb|DR341041.1|DR341041
EST:     GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAG                         GTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
genomic: GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAGgttagtcctg ... atgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
EST: gi|86045282|gb|DR341037.1|DR341037
EST:     GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAG                         GTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA
genomic: GGAGGTGATCCTTCTCAACAGCGGAATCATGCTCTCGAGgttagtcctg ... atgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgactaagagctcttaatttcttttgatttatcttatggttggcatgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGAGTATCAACTGGGAGTATAGATAACCAGGATGTCTCTTCTAATCCGCCTT
              ttaatttcttttgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gccgtttatagaatattgttttactgatttgttacaattggttacgtgactaagagctcttaatttcttttgatttatcttatggttggcatgaatacagGTTGCAACTTCTTCATTGGCATCTGTTGCAAGACTTCCATGGGGATCTCGAGTATCAACTGGGAGTATAGATAACCAGGATGTCTCTTCTAATCCGCCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - -gatttgt
- - - - - - - - - - - - - - - - - - - - - - - - actaaga