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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aactgtaccatcgctttcaaaatgtttaagttttcaagtttctgtatttctgtttaaatgtttcagcattttgacatttgagacctgtgtcaattttcagATAAACCCGCAATTCTATGCATTCAGATGGATCACACTCCTATTGACTCAAGAATTCAATTTCGTGGAAAGCCTTCACATCTGGGACACACTCTTAAGCG

Basic information

species Arabidopsis thaliana
transcript AT4G13730.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 7
aactgtaccatcgctttcaaaatgtttaagttttcaagtttctgtatttc-tgtttaaatgtttcagcattttgacatttgagacctgtgtcaattttcagATAAACCCGCAATTCTATGCATTCAGATGGATCACACTCCTATTGACTCAAGAATTCAATTTCGTGGAAAGCCTTCACATCTGGGACACACTCTTAAGCG
   ||      | | | |   ||| || |         ||| ||  |||  |  || ||   || | ||  | |    |     |  ||    | | |||| | || || |||||||||||||| || ||||| || |||||  ||||||| ||||||||||| |  || ||||||||||| |||||||| || |||||||
-tttgcgtgcacacctgctggatgattcaaccaatgtatttttgcttttggttattgaacagtttatcagatgggtcatgttttctggttctgaatgtcagGTCAATCCTCAATTCTATGCATTTAGGTGGATTACTCTCCTGCTGACTCAGGAATTCAATTTTGCTGACAGCCTTCACATTTGGGACACTCTTTTAAGCG

upper sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA05G28660.1 (Glycine max), 3'ss of exon 7
--aactgtaccatcgctttcaaaatgtttaagttttcaagtttctgtatttctgtttaaatgtt--tcagcattttgacatttgagacctgtgtcaattttcagATAAACCCGCAATTCTATGCATTCAGATGGATCACACTCCTATTGACTCAAGAATTCAATTTCGTGGAAAGCCTTCACATCTGGGACACACTCTTAAGCG
     || |    | | | |   ||| || |    |  | || || | |  || || ||  |||  ||||  |  | | ||||    |  ||    | |||||| | || || |||||||||||||| || ||||| || |||||  ||||||| ||||||||||| |  || ||||||||||| ||||| || || |||||||
ttttttgcatgcacacctgctggatgattcaaccatgtatttgcttt-tggctattgaacagtttatcagattgctcatatttt---ctggttctgaatttcagGTCAATCCTCAATTCTATGCATTTAGGTGGATTACTCTCCTGCTGACTCAGGAATTCAATTTTGCCGACAGCCTTCACATTTGGGATACTCTTTTAAGCG

upper sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 7
aactgtaccatcgctttcaaaatgtttaagtttt--caagtttctgtatttctgt--ttaaatgtttcagcattttgacatttgagac-ctgtgt---caattttcagATAAACCCGCAATTCTATGCATTCAGATGGATCACACTCCTATTGACTCAAGAATTCAATTTCGTGGAAAGCCTTCACATCTGGGACACACTCTTAAGCG
        |||    |   | ||||||    ||     | || |   |||| |    ||   || |  | |  |  ||  | |||  | || | |   ||| |  ||| | || || ||||| |||||||| |||||||| || ||||| ||||||||||| |||||||| | ||| ||||||||||| |||||||||||  |||| |
--------cataagctggcagatgtttggacttcagtgaattacatcatttttacccttggttggtcaatctctcagatgtctgatgctctatatttgcaaatggcagGTCAATCCCCAATTTTATGCATTTAGATGGATAACTCTCCTCTTGACTCAAGAGTTCAATTTTGCGGACAGCCTTCACATTTGGGACACACTTCTAAGTG

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|116409994|gb|EG452586.1|EG452586
EST:     TGAAGCATCATGATGAAGAACTTTGGCGTCATTTAGAAGTCACAACCAAA                         ATAAACCCGCAATTCTATGCATTCAGATGGATCACACTCCTATTGACTCAA
genomic: TGAAGCATCATGATGAAGAACTTTGGCGTCATTTAGAAGTCACAACCAAAgtaagatatt ... caattttcagATAAACCCGCAATTCTATGCATTCAGATGGATCACACTCCTATTGACTCAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctgtttaaatgtttcagcattttgacatttgagacctgtgtcaattttcagATAAACCCGCAATTCTATGCATTCAGATGGATCACACTCCTATTGACTCAAGAATTCAATTTCGTGGAAAGCCTTCACATCTGGGACACACTCTTAAGCG
                       ttttgac  putative branch site (score: 3)
                                                ttttc  putative PPT
       tttaaatgttt  TA-rich tract