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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgaaacttaactaaaaaaatgttgccctcctgcctagtcttgtgattttttttgtattggttcctgctgtcttgataattttaatatttttctgtagATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTATCAAGCCACCCACTTCACAAGACCAACAAACCAGGCATTTGTTCGATGG

Basic information

species Arabidopsis thaliana
transcript AT2G33340.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os10g32880.1 (Oryza sativa), 3'ss of exon 5
--------------------------------------------------------------------gtttgaaacttaactaaaaaaatgttgccctcctgcctag-------tcttgtgattttttttgtattggttcctgctgtctt---------gataa----ttttaatatttttctgtagATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTATCAAGCCACCCACTTCACAAGACCAACAAACCAGGCATTTGTTCGATGG
                                                                      || | | ||| || || ||   | || |  ||  | ||       | |     | ||| |||   |  || |  ||  |||         |||||    | |  | |||||     || |||||| ||| ||||| ||||| ||| |  | ||||| |  || ||| | || || || |||||||||||||| |||||||||||||| |  || ||||
gtacatatctgtattcatagttatgctacaaacaaggtctaaaacatgcattaatgtttttatccaatagttaaga-ttatctcaagaatgctagctcatctcgccaggacattatttctcagtgtttgttgccatctttacaccttacttttgaaatgagataacagttctctacattttctcacagGTTCCTCCAACTTTGGCATCAATTGATGCAATTGAGAGATATACCCAGATCTCCAGTCATCCACTTCACAAGACAAACAAACCAGGCATCTTATCTATGG
















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|116465161|gb|EG507753.1|EG507753
EST:     AATTGACTGATTGTAATGCTGCTCTTTCCCAGAAGCGAAAAAAGCGACAG                         ATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTA
genomic: AATTGACTGATTGTAATGCTGCTCTTTCCCAGAAGCGAAAAAAGCGACAGgtactgcaca ... ttttctgtagATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTA
EST: gi|116444558|gb|EG487150.1|EG487150
EST:     AATTGACTGATTGTAATGCTGCTCTTTCCCAGAAGCGAAAAAAGCGACAG                         ATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTA
genomic: AATTGACTGATTGTAATGCTGCTCTTTCCCAGAAGCGAAAAAAGCGACAGgtactgcaca ... ttttctgtagATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTA
EST: gi|125261523|gb|EL275608.1|EL275608
EST:     ATTGACTGATTGTAATGCTGCTCTTTCCCAGAAGACGAAAAAAGCGACAG                         ATTCCTCAAACATTGGC
genomic: ATTGACTGATTGTAATGCTGCTCTTTCCCAGAAG-CGAAAAAAGCGACAGgtactgcaca ... ttttctgtagATTCCTCAAACATTGGC
EST: gi|116472806|gb|EG515398.1|EG515398
EST:     AATTGACTGATTGTAATGCTGCTCTTTCCCAGAAGCGAAAAAAGCGACAG                         ATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTA
genomic: AATTGACTGATTGTAATGCTGCTCTTTCCCAGAAGCGAAAAAAGCGACAGgtactgcaca ... ttttctgtagATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTA
EST: gi|125036843|gb|EL109112.1|EL109112
EST:     TTTCCCAGAAGCGAAAAAAGCGACAG                         ATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTA
genomic: TTTCCCAGAAGCGAAAAAAGCGACAGgtactgcaca ... ttttctgtagATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattttttttgtattggttcctgctgtcttgataattttaatatttttctgtagATTCCTCAAACATTGGCGTCAATAGATACTTTGGAGAGGTTCACTCAGCTATCAAGCCACCCACTTCACAAGACCAACAAACCAGGCATTTGTTCGATGG
                                    ttttaat  putative branch site (score: 3)
                                          tatttttct  CT-rich tract
                           tcttgataattttaat  TA-rich tract