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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcctcatttccctggaaatgttttcgtatctgtcctcatatttgacctaaactaaaatgcagATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTTGCTCCGTTTTGGGTTTACAACGACATGACCACCCGAAAATG

Basic information

species Arabidopsis thaliana
transcript AT2G04360.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G04360.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G11710.1 (Glycine max), 3'ss of exon 4
--------------------------gtaagc-ctcatttccctggaaatgttttcgtatctgtcctcatatttgacctaaactaaaat--------gcagATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTTGCTCCGTTTTGGGTTTACAACGACATGACCACCCGAAAATG
                           || || ||||| | |||  ||||       |  |  | ||| ||   | |  |||  |   |        |||||| ||| ||||     |||||||   | |||| ||  ||||||| |||||||||||||||||||| |||||  | |||||| |
ttatggctaaattagaatacatgttcttatgcactcatcttccta-aaataggaaattggcaatactcttaaggggctaaaatcaggttttcatgttgcagATCCATATTACGTCCATTGATTTTATTATACTTTCCACATTTGCACCGTTTTGGGTTTACAACGATATGACTGCTCGAAAACG
















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|116416787|gb|EG459379.1|EG459379
EST:     ATGCCGGTGATTGGACGGAGTTTTATCAGTACTTTCGAGAGAGCAAATTT                         ATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTTGCTCCGTTT
genomic: ATGCCGGTGATTGGACGGAGTTTTATCAGTACTTTCGAGAGAGCAAATTTgtaagcctca ... taaaatgcagATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTTGCTCCGTTT
EST: gi|124987570|gb|EL060020.1|EL060020
EST:     TTTATCAGTACTTTCGAGAGAGCAAATTT                         ATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTTCGCTCCGTT
genomic: TTTATCAGTACTTTCGAGAGAGCAAATTTgtaagcctca ... taaaatgcagATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTT-GCTCCGTT
EST: gi|125059935|gb|EL128612.1|EL128612
EST:     ATGCCGGTGATTGGACGGAGTTTTATCAGTACTTTCGAGAGAGCAAATTT                         ATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTTGCTCCG
genomic: ATGCCGGTGATTGGACGGAGTTTTATCAGTACTTTCGAGAGAGCAAATTTgtaagcctca ... taaaatgcagATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTTGCTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccctggaaatgttttcgtatctgtcctcatatttgacctaaactaaaatgcagATTCATGTTACAAGTCTTGATTTCTGTTTACTCTCTGCATTTGCTCCGTTTTGGGTTTACAACGACATGACCACCCGAAAATG
                                          aactaaa  putative branch site (score: 2)
                                        taaactaaaat  TA-rich tract