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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtttcagaatcttgatcgttctttcatatggatcaaataattttactctgtttcacatgatttctttttgtagGTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAGCTGGTGACGGAAACAGCTTCTCATATATCGGGTATCAGACTTTGGGTAA

Basic information

species Arabidopsis thaliana
transcript AT3G61540.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G61540.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA18G47320.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------gtctgtttcagaatcttgatcgttctttcatatggatcaaataatttta----ctctgtttcacatgatttc-tttttgtagGTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAGCTGGTGACGGAAACAGCTTCTCATATATCGGGTATCAGACTTTGGGTAA
                                                                            || |  || || |||        | ||| |    |   | ||      | ||||     ||||    |  | | |||| |||||||||||||| |||||||| |||||  |||| || || || |||||||  | ||||||||||||||| ||| | || || || |  ||| |||
gtagtttgctcagttatccgttataccatcaaaattcctagcaagacaagaattatgattgatacaaccttaacaattgaatatgtttatcaagagacaagatgaaggtgagtctcttgagttttttgttaactttgatccaatgctggcagGTACCTGTTGCTGCAGCTGTTTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA

upper sequence: AT3G61540.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 9
---------------gtctgtttcagaatcttgatc------gttctttcatatggatcaaataattttactctgtttcacatgatttc--tttttgtagGTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAGCTGGTGACGGAAACAGCTTCTCATATATCGGGTATCAGACTTTGGGTAA
               |    ||| ||||   ||  |      |  ||| |      |||   | | | |    || || |  |  ||||  |  | | |||| ||||||||||| || ||||| || |||||||||||||| |||||||| ||||| | ||||||||||||||| ||| | || || ||| | ||| |||
gttccaaaccggaggggtactttgagaaatgtggcccagcatgagcttactggacaatccttttagtgtctattggtttatttactttcaatcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAACTGGTTATGGAAACAGCTTCTCAGATAGCAGGCATTAGATTGTGGATAA
















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|86083248|gb|DR379007.1|DR379007
EST:     AAGAGGATTGGCCTCCATTATATGATGTTCCTAGATTGCAGAATAACAAG                         GTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAG
genomic: AAGAGGATTGGCCTCCATTATATGATGTTCCTAGATTGCAGAATAACAAGgtctgtttca ... ctttttgtagGTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAG
EST: gi|86088282|gb|DR384041.1|DR384041
EST:     AAGAGGATTGGCCTCCATTATATGATGTTCCTAGATTGCAGAATAACAAG                         GTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAG
genomic: AAGAGGATTGGCCTCCATTATATGATGTTCCTAGATTGCAGAATAACAAGgtctgtttca ... ctttttgtagGTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttcatatggatcaaataattttactctgtttcacatgatttctttttgtagGTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAGCTGGTGACGGAAACAGCTTCTCATATATCGGGTATCAGACTTTGGGTAA
                                          tttctttttgt  CT-rich tract
             atcaaataattttact  TA-rich tract