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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcttattcaaagtccatacaaaacaatctggattcgagtatatgactttggattgttttgatgcagAGGGCTTGAATCTGTAACAGACAGAGAGGTTTGCTGTTACATGATCTCGTGTAAGGACTCGATAAACATTGATGCGGTCATCGATTGGCTCATTAAGCAC

Basic information

species Arabidopsis thaliana
transcript AT5G37680.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G37680.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os02g49980.1 (Oryza sativa), 3'ss of exon 5
----------------------gtaagtttcttattca-aagtccatacaaaacaatctggattcgagtatatgactttggattgttttgatgcagAGGGCTTGAATCTGTAACAGACAGAGAGGTTTGCTGTTACATGATCTCGTGTAAGGACTCGATAAACATTGATGCGGTCATCGATTGGCTCATTAAGCAC
                      || || || | || |   |||   ||   |   |      ||  |    | |   |     |  | |  | |||||| || ||||   |||  ||| | || |||||||| ||||||||||| || ||||||||  ||||||| ||||  ||||| |||||||| || ||||||
gtgagtttactaccttttctgtgtgagcttgtcatccttgagtggctaattactgaatgatgtttcaactgaagtggtctttctcatgtatttcagAGGCCTGGAATTGATAAAGGACCGGGAAGTTTGCTGCTACATGATCTCTTGCAAGGACTCTGTAAACATAGATGTTGTCATTGATTGGCTTATCAAGCAC
















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|86076485|gb|DR372242.1|DR372242
EST:     AAAATCGACAAGTCTGAAGCTCTCTCTAAGCAAGCTTTGGTTGATCAACT                         AGGGCTTGAATCTGTAACAGACAGAGAGGTTTGCTGTTACATGATCTCGTG
genomic: AAAATCGATAAGTCTGAAGCTCTCTCTAAGCAAGCTTTGGTTGATCAACTgtaagtttct ... tttgatgcagAGGGCTTGAATCTGTAACAGACAGAGAGGTTTGCTGTTACATGATCTCGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtccatacaaaacaatctggattcgagtatatgactttggattgttttgatgcagAGGGCTTGAATCTGTAACAGACAGAGAGGTTTGCTGTTACATGATCTCGTGTAAGGACTCGATAAACATTGATGCGGTCATCGATTGGCTCATTAAGCAC
                                            ttttgat  putative branch site (score: 4)
                                         ttgtttt  CT-rich tract
        aaaacaat  TA-rich tract