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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttccctcattttttgtgccttgtctcatgcactctctgtactaacaaatcatgctactccttactcgctaagattagtatttgactagtctaagcttgactaatctttttaatggttttatctgaatgaagGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAACACACATCTCGCCTCCAACACTTTCCTTGTTGGACACTCTGTCACCCTTG

Basic information

species Arabidopsis thaliana
transcript AT1G57720.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G059580_T03 (Zea mays), 3'ss of exon 4
gtaagctttccctcattttttgtgccttgtctcatgcactctctgtactaacaaatcatgctactccttactcgctaagattagtatttgactagtctaagcttgacta---atctttttaatggttttatctgaatga--agGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAACACACATCTCGCCTCCAACACTTTCCTTGTTGGACACTCTGTCACCCTTG
                                                           |  | |  |     |  ||  || || ||||  |  | | | | | ||||   || | || | | ||||||| ||  ||   || |||||||| | || ||| || |||||||||||   ||||  ||||||||||||||||| ||||  ||||| | |||||||||||| ||||| || || |
-----------------------------------------------------------gtaagttgtaggctgggaaacttggtttttgtattat-tgaacataactagctatatattaactcgttttatgtgtgtgtgcagACTGAGGAAACAGCTATTGCTTCATTGAAGAGATCCCTTGGTGCTCTGAACACACATCTTGCCTTGAACACATACCTTGTTGGACATTCTGTTACTCTAG
















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|124807571|gb|EH893975.1|EH893975
EST:     TTCTCTGCCCCA                         GCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAAC
genomic: TTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAAC
EST: gi|164219477|gb|ES055365.1|ES055365
EST:     TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCTTTCTCTGCCCCA                         GCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGG
genomic: TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGG
EST: gi|125164777|gb|EL191367.1|EL191367
EST:     TGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCA                         GCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAAC
genomic: TGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAAC
EST: gi|125218965|gb|EL233050.1|EL233050
EST:     AATGGGCTATGCTCCCTTCTCTGCCCCA                         GCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAAC
genomic: AATGGGCTATGCTCCCTTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAAC
EST: gi|125045431|gb|EL117700.1|EL117700
EST:     TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCACCA                         GCTGAGGAAGCG
genomic: TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCG
EST: gi|125022589|gb|EL094858.1|EL094858
EST:     TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCA                         GCTGAGGAAGCGGCAATTT
genomic: TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCGGCAATTT
EST: gi|124896976|gb|EH973190.1|EH973190
EST:     GTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCA                         GCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCT
genomic: GTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCT
EST: gi|116410809|gb|EG453401.1|EG453401
EST:     TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCA                         GCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAAC
genomic: TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAAC
EST: gi|125252380|gb|EL266465.1|EL266465
EST:     TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCA                         GCTGAGGAAGCGGCAAT
genomic: TGTTGAAGTGGTTTGCTCCAAGAATGGGCTATGCTCCCTTCTCTGCCCCAgtaagctttc ... ctgaatgaagGCTGAGGAAGCGGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatttgactagtctaagcttgactaatctttttaatggttttatctgaatgaagGCTGAGGAAGCGGCAATTTCTGCATTGAAGAGAGGACTTGAGGCTCTGAACACACATCTCGCCTCCAACACTTTCCTTGTTGGACACTCTGTCACCCTTG
                                       ttttatct  CT-rich tract
                        taatctttttaatggt  TA-rich tract