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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttcatagatacacatcttttgcatgccagtgtgaccttaaaattgataattaacatttttattctactcctccagATTGAAGCTAATGATAAATATGTTGATTCCCCACCTCCGTATCTCATTCTTCTGCATCCTGCCCTCGGCCCTCTTTGGGAAGTTTCGAGACAGAAA

Basic information

species Arabidopsis thaliana
transcript AT3G56040.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G56040.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA18G02900.1 (Glycine max), 3'ss of exon 11
------------------------------------------------------------gttagttcatagatacacatcttttgcatgccagtgtgaccttaaaattgataattaacatttttattctactcctccagATTGAAGCTAATGATAAATATGTTGATTCCCCACCTCCGTATCTCATTCTTCTGCATCCTGCCCTCGGCCCTCTTTGGGAAGTTTCGAGACAGAAA
                                                            |||  ||   | ||     |  ||||| |      |  || || || ||  |   |   |   ||  ||| ||||| |||||||||||||| || || |||||||||||   ||| || | |||||| |||||||||||||| ||||| ||||||||||||||  | |  || |||
gtatatatgtattctaatgtgttttatgcatattgatttgttttcatgtggttgggttgggttcattttcatattatactagtttgcttattctaggtactttcaa-ttattttatgttacgctttctct-ctcctgcagATTGAAGCTAACGAGAACTATGTTGATTCGGGACCACCATTTCTCATCCTTCTGCATCCTGCTCTCGGTCCTCTTTGGGAAGTCACTAAGCAAAAA
















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|125324378|gb|EL338458.1|EL338458
EST:     TCCGGAATGGATATGA-CTCCTTACGGAGTGTGATATCAAACTCCCCATG                         ATTGAAGCTAATGATAAATATGTTGA
genomic: TCCGGAATGGATATGACCTCCTTACGGAGTGTGATATCAAACTCCCCATGgttagttcat ... actcctccagATTGAAGCTAATGATAAATATGTTGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgccagtgtgaccttaaaattgataattaacatttttattctactcctccagATTGAAGCTAATGATAAATATGTTGATTCCCCACCTCCGTATCTCATTCTTCTGCATCCTGCCCTCGGCCCTCTTTGGGAAGTTTCGAGACAGAAA
                           aattaac  putative branch site (score: 2)
                                   tttttattctactcct  CT-rich tract
                ttaaaattgataatta  TA-rich tract