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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgatccatcaaacttccagttacgttgatgtctctctaagttcttgctggcagatatacttactaaaatctgtttgctcttgcagATTTTCACGACAGCAGCACATGATGCACATAAAAATATTGTGTTCCTGTCTTTTGAAATGGTTGAGAAGATTATCCGAGACTACTTCCCACACATCACGG

Basic information

species Arabidopsis thaliana
transcript AT1G01960.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G45360.1 (Glycine max), 3'ss of exon 10
---------gtatttgatccatcaaa--cttccagttacgttga---------tgtctctctaagttcttgct--ggcagatatacttactaaaatctgtttgctcttgcagATTTTCACGACAGCAGCACATGATGCACATAAAAATATTGTGTTCCTGTCTTTTGAAATGGTTGAGAAGATTATCCGAGACTACTTCCCACACATCACGG
          | | || |||||  |   |||| | || | | ||         |||||  | ||||| ||  |     |  | |||| | |    | ||       || |||   ||||| ||||||||| ||||||  || ||||| |||||  || || ||||||||||  | ||||||||||| ||||| ||||| || |||||||| |
gtagggctaatttatgttccatagagggcttcaatttgcatggaaaatgtttttgtctgccgaagtttttctttcattatttctactcattgct-tgtggacataattccagGCATTCACAACAGCAGCATATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCTCACATCACTG

upper sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 8
---------------------------------------------------------gtatttgatccatcaaacttccagttacgttgatgtctctctaagttcttgctg-gcagatatacttactaaaatctgtttgctcttgcagATTTTCACGACAGCAGCACATGATGCACATAAAAATATTGTGTTCCTGTCTTTTGAAATGGTTGAGAAGATTATCCGAGACTACTTCCCACACATCACGG
                                                         |  |||  | | ||||  |        | ||||| | | | |      | |||  |   | | | ||| |||  |   | |  | || ||| | ||||| ||||||||  ||||||  |||||||| || ||  ||||| | ||||||||  ||||||||||| | ||||||||||||||  |||| || |
gtattgaaatctgtccaatctgtagttttctattaaagaatatgcaagtgagggagtgattttagttcttcaatttgatttcatcattgat-tttatttggtgaatggctatgttaacaga-ttattaatgtgaatat-ttttttcagGTCTTCACAACAGCAGCTTATGATGATCATAAAAACATAGTACTCCTGGCCTTTGAAATAATTGAGAAGATTGTGCGAGACTACTTCCCCTACATTACTG
















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|125142586|gb|EL179785.1|EL179785
EST:     TTTTATCCCGTGTTGACAATGTCAAGTCGGGATGGAAGAGTATGTTCATG                         ATTTTCACGACA
genomic: TTTTATCCCGTGTTGACAATGTCAAGTCGGGATGGAAGAGTATGTTCATGgtatttgatc ... gctcttgcagATTTTCACGACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctctaagttcttgctggcagatatacttactaaaatctgtttgctcttgcagATTTTCACGACAGCAGCACATGATGCACATAAAAATATTGTGTTCCTGTCTTTTGAAATGGTTGAGAAGATTATCCGAGACTACTTCCCACACATCACGG
                              tactaaa  putative branch site (score: 1)
                                          tttgctctt  putative PPT
                       atatacttactaaaat  TA-rich tract