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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtctcttgtactgctacttgatattccaatgcttagctgatttgcagtattataggagttgcttttgtatttgtgggcatctcttttttcttgcatctttatatgtgtactaatgcgtcttcattttgacgtatgttggttttattacagTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG

Basic information

species Arabidopsis thaliana
transcript AT1G73430.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G73430.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os08g34970.1 (Oryza sativa), 3'ss of exon 3
gtagtctcttgtactgcta-cttgatattccaatgcttagctgatttgcagtattataggagttgcttttgtatttgtgggcatctcttttttcttgcatctttatatgtgtactaatgcgtcttcattttgac---gtatgttggtt--ttattacagTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG
               | ||  || ||| ||   |   ||  | | ||| |  |||           ||  |||||        ||    ||   |||  ||   |||   |    | |   ||| ||  ||||     ||  ||  ||   |  |  ||||||||||||||||| |||| || |||||||| ||||| ||||||
---------------gttagtttcataatcttgttgatatatcacttgtatgattgatcagagaatttcggtattctatctattcaaccttaagttgtgtcaggatagaaggtaaactatttctgcaggttgagctaatacctttattacctcctgtagTTCTACAAATGGTTTTCTGAACTGGAATCAGCTATGAAATCTGAG

upper sequence: AT1G73430.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA17G04990.1 (Glycine max), 3'ss of exon 3
gtagtctcttgtactgctacttgatattccaatgcttagctgatttgcagtattataggagttgcttttgta--tttgtgggcatctcttttttcttg-catctttatatgtgtactaatgcgtcttcattttgacgtatgttggttttattacagTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG----
                                                           |||||  |  | |   | ||  |   || |   | |||| | |   | | | | |  | |||     | |||||    | | |||  |||  | |||||||||||||||||||| ||||||||||| || ||||| || |||    
--------------------------------------------------------gtaagttgtctgcgcaatctggtttgtggctttgaatgcttgacgtgagtttttttttttttatgtagtgttatttttttttct-ttgaatttgatgcagTTCTACAAATGGTTTACGGATCTTGAATCTGCCATGAAATCAGAGGTCA

upper sequence: AT1G73430.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv11s0016g00350.t01 (Vitis vinifera), 3'ss of exon 4
gtagtctcttgtactgctacttgatattccaatgcttagctgatttgcagtattataggagttgcttttgtatttgtgggcatctcttttttcttgcatctttatatgtgtactaatgcgtcttcattttgacgtatgttggttttat--tacagTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG
                                                  | ||  |    |||| |  |  |||||     |  | |    | | || || ||||      |||| || | |   | |  |  |||      |  ||  | |||||||| || ||||||||||||||||||||||| |||||||| |||
-------------------------------------------------ttctttaatattttgcctccgattttgtat-tgttccatggaacatacaactatata-----gctaaagcttttctttctgtaaatattaatcctccatggtgcagTTCTATAAGTGGTTTACTGATCTTGAATCAGCCATGAAGTCAGAG

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|116477890|gb|EG520482.1|EG520482
EST:     ATTTGGGAGATTCTGGAGCAATTGAAGCTGTTTTGGTTAATACAAATCAG                         TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG
genomic: ATTTGGGAGATTCTGGAGCAATTGAAGCTGTTTTGGTTAATACAAATCAGgtagtctctt ... tttattacagTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG
EST: gi|116477898|gb|EG520490.1|EG520490
EST:     ATTTGGGAGATTCTGGAGCAATTGAAGCTGTTTTGGTTAATACAAATCAG                         TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGA
genomic: ATTTGGGAGATTCTGGAGCAATTGAAGCTGTTTTGGTTAATACAAATCAGgtagtctctt ... tttattacagTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttatatgtgtactaatgcgtcttcattttgacgtatgttggttttattacagTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG
                                            ttttatt  CT-rich tract
                                            ttttattaca  TA-rich tract