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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttggttctcgctctctgttgctaattgtttcgttaagaagataggtttgattatgttatccatgtgaggtgtgttgttttgacttctctaacttagGGATGGTTTAGAGCCAAATCTGCCTGCTGTAGCCACTGGTTCTCACATCGATGCTATTCCATATTCCGGGAAATATGATGGTGTTGTCGGTGTTTTAGGT

Basic information

species Arabidopsis thaliana
transcript AT5G43600.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G43600.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G32850.2 (Glycine max), 3'ss of exon 2
gtttggttctcgctctctgttgctaa--ttgtttcgttaagaagataggtttg-attatgttatccatgtgaggtgtgttgttttgacttctctaacttagGGATGGTTTAGAGCCAAATCTGCCTGCTGTAGCCACTGGTTCTCACATCGATGCTATTCCATATTCCGGGAAATATGATGGTGTTGTCGGTGTTTTAGGT
 || |  | ||             ||  || | || |        || |  || | | |  || | |           || | ||  |||   | |   ||||||||  | || ||  | ||  |||| || || || ||||| ||||| |||||||| || || || || ||||||||||| ||||| ||||||||||||
-ttggcctttcaaaaaaaaaaaaaaaaattctatcttagttgcagtatgcctgtaatttactaactacactcaccactttatctttgcttgctttatgcagGGATGGCCTTGAACCTGAGCTTGCTGCAGTTGCAACAGGTTCGCACATTGATGCTATACCTTACTCGGGAAAATATGATGGAGTTGTTGGTGTTTTAGGT

upper sequence: AT5G43600.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv05s0020g04900.t01 (Vitis vinifera), 3'ss of exon 3
gtttggttctcgctctctg-ttgctaattgtttcgttaagaagataggtt--tgattatgttatccatg-tgaggtgtgttgttttgacttctctaacttagGGATGGTTTAGAGCCAAATCTGCCTGCTGTAGCCACTGGTTCTCACATCGATGCTATTCCATATTCCGGGAAATATGATGGTGTTGTCGGTGTTTTAGGT
  || | || |  | | |  ||  |   | ||   |  |  || |   ||  || ||    | |   || | | |    |  | ||   | |  | |   ||||| ||||  |||||| | ||  ||||||| || || ||||||||||| |||||||||||||| || |||||||||||||| || ||||||||||| |||
--ttaggtcacattatttaattctttgctattgtttccattagttttcttcttgtttcaactgtatctgatcaagctcttcatcttatttccctttatgcagGGAAGGTTATGAGCCAGAGCTTACTGCTGTTGCAACAGGTTCTCACATTGATGCTATTCCATACTCTGGGAAATATGATGGGGTCGTCGGTGTTTTGGGT
















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|124948426|gb|EL024174.1|EL024174
EST:     GCTGGTCTTACTGTTAGAGCAGATGCTGTTGGTAACATATTTGGCAAATG                         GGATGGTTTAGAGCCAAATCTGCCTG
genomic: GCTGGTCTTACTGTTAGAGAAGATGCTGTTGGTAACATATTTGGCAAATGgtttggttct ... tctaacttagGGATGGTTTAGAGCCAAATCTGCCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggtttgattatgttatccatgtgaggtgtgttgttttgacttctctaacttagGGATGGTTTAGAGCCAAATCTGCCTGCTGTAGCCACTGGTTCTCACATCGATGCTATTCCATATTCCGGGAAATATGATGGTGTTGTCGGTGTTTTAGGT
                                            ctctaac  putative branch site (score: 2)
                                         cttctct  CT-rich tract
        attatgttat  TA-rich tract