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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtagttattaaatcctataactagtcaatctttaacttgtggctgaccatattgtgcctaaactctgctctgtcataaacatagATAAAGGGAAGTGACACATCCACTGCAGAGTCAGGATCTGACGCTGAAGATATCGGTTCTCCGAAGGCTATAAAGAGTTTCTCTCATCTCCGCTTGACAC

Basic information

species Arabidopsis thaliana
transcript AT2G21520.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G21520.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 10
----------------------------gtacgtagttattaaatcctataactagtcaatct-ttaacttgtggctgaccatattgtgc-ctaaactctgctctgtcataaacatagATAAAGGGAAGTGACACATCCACTGCAGAGTCAGGATCTGACGCTGAAGATATCGGTTCTCCGAAGGCTATAAAGAGTTTCTCTCATCTCCGCTTGACAC
                            |    || || |||  |  | ||| |  |  || | || | ||     | |   | |      ||  | | || | |    |  |   |||| || || ||||| |||||||| ||||| ||||||||||| ||||||||||| | ||| || ||    |  |||||||  || || || || ||||| |
gtaagacctccttacttggacagaaccaggttttattttttattttatttaatttatttatttatttattttcaattaatattgtcacattctctattttgttatcatctttaagcagATGAAAGGTAGTGATACATCCACAGCAGAATCAGGATCTGAAGCTGAAGATATTGCTTCCCCAAAAATGACTAAGAGTTATTCACAACTGCGGTTGACTC
















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|124944614|gb|EL020698.1|EL020698
EST:     TGAACAGCGAAGGGAAAGTCATTGCTTATGCAAAACCTTCATATACATGG                         ATAAAGGGAAG
genomic: TGAACAGCGAAGGGAAAGTCATTGCTTATGCAAAACCTTCATATACATGGgtacgtagtt ... ataaacatagATAAAGGGAAG
EST: gi|86064746|gb|DR360503.1|DR360503
EST:     TGAACAGCGAAGGGAAAGTCATTGCTTATGCAAAACCTTGATATACATGG                         ATAAAGGGAAG
genomic: TGAACAGCGAAGGGAAAGTCATTGCTTATGCAAAACCTTCATATACATGGgtacgtagtt ... ataaacatagATAAAGGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttaacttgtggctgaccatattgtgcctaaactctgctctgtcataaacatagATAAAGGGAAGTGACACATCCACTGCAGAGTCAGGATCTGACGCTGAAGATATCGGTTCTCCGAAGGCTATAAAGAGTTTCTCTCATCTCCGCTTGACAC
                          gcctaaa  putative branch site (score: 3)
                                             ataaacata  TA-rich tract