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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaacaatttggcgatttcttcactgtcaatagtgtctgatattcattaagttactttgatctgaagatcgaaatttattttcactgccatttttcagAAGCAAAGGCCGCTGCTGATCGTTGCTGAGGATGTGGAGAGCGATGCTCTTGCCACCCTAATTCTGAACAAACTTCGTGCTAATATCAAG

Basic information

species Arabidopsis thaliana
transcript AT2G33210.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 8
gtataaacaatttggcgatttcttcactgtcaatagtgtctgatattcattaagttactttgatctgaagatcgaaatttattttca-ctgccatttttcagAAGCAAAGGCCGCTGCTGATCGTTGCTGAGGATGTGGAGAGCGATGCTCTTGCCACCCTAATTCTGAACAAACTTCGTGCTAATATCAAG
           |  | | || |||   |   ||||||     ||  |  |   | ||||  ||| |         || |  |   || ||  | ||   |||||||||||||| |||||||| |||||||| ||||| |||||||| ||  | |  || || ||| | ||||| ||||||||    ||||||
----------gtatgtgtttgctttcataa-aatagttgtatattgtggtggtgctact--gattttcttgctataactggtcaacatcttgccttgcacagAAGCAAAGGCCTCTGCTGATTGTTGCTGAAGATGTAGAGAGCGAGGCATTGGGTACTCTGATTATTAACAAGCTTCGTGCAGGCATCAAG

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 8
gtataaacaatttggcgatttcttcactgtcaatagtgtctgatattcattaagttactttga---tctgaagatcgaaatttattttcactgccat-ttttcagAAGCAAAGGCCGCTGCTGATCGTTGCTGAGGATGTGGAGAGCGATGCTCTTGCCACCCTAATTCTGAACAAACTTCGTGCTAATATCAAG
                            || |  | || |  ||   | |||  || |  |||   | | || || |  ||    |  |||| |  | ||  ||||  ||||||||  | ||||| || |||||||||||||| || ||||| ||||| || || ||||| || ||||||||||||   ||||||
----------------------------gtgagcaatgcc--attcactttattttgcactgactttttaaatattggtatcggctaacacttctttattgccagAGACAAAGGCCTTTACTGATTGTCGCTGAGGATGTGGAAAGTGATGCCCTTGCAACTCTTATTCTAAATAAACTTCGTGCTGGAATCAAG
















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|116483327|gb|EG525919.1|EG525919
EST:     AAATTTCCAATATAAACGCAATGGTGAAAGTATTAGAACTGGCCCTCAAG                         AAGCAAAGGCCGCTGCTGATCGTTGCTGAGGATGTGGAG
genomic: AAATTTCCAATATAAACGCAATGGTGAAAGTATTAGAACTGGCCCTCAAGgtataaacaa ... catttttcagAAGCAAAGGCCGCTGCTGATCGTTGCTGAGGATGTGGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattaagttactttgatctgaagatcgaaatttattttcactgccatttttcagAAGCAAAGGCCGCTGCTGATCGTTGCTGAGGATGTGGAGAGCGATGCTCTTGCCACCCTAATTCTGAACAAACTTCGTGCTAATATCAAG
           ctttgat  putative branch site (score: 5)
                                            ccatttttc  putative PPT
                        atcgaaatttatttt  TA-rich tract