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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtcttgttgtttcaaagtctcaagagttttcgccgagacatacttgattaaaactcacaaactgataatgggattcatagGCAATTGAAGCAGCGATAGAGCTTAATCTGAAAACGGTAGAAGCTGGAGCGCAGGGTGAGCATAAGATTCAGCGAGGCTACCTTCCCGTTAAAACATATA

Basic information

species Arabidopsis thaliana
transcript AT2G23390.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA07G40290.3 (Glycine max), 3'ss of exon 6
----------------gttggtcttgttgtttcaaagtctcaa---gagttttcgccgagacatacttgattaaaactcacaaactgataatgggattcatagGCAATTGAAGCAGCGATAGAGCTTAATCTGAAAACGGTAGAAGCTGGAGCGCAGGGTGAGCATAAGATTCAGCGAGGCTACCTTCCCGTTAAAACATATA
                  |  |||  ||  | || | |    |   |   | |  | | || | |  | ||    | | ||||  |  |  ||  || || |||||||||||||||| || || || ||||| ||||| ||||| || ||||| |||||||| || ||||||||||| || || ||||| || | ||| ||||
aaaactatacttgatcacttctctcatttgtacataattcagatgtggtatatatcagggaaacaaataat--gtatttacaattttgtcttgacat-cacagGCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCTCAGGGTGAACACAAGATTCAGCGGGGATATCTTCCTGTGACAACTTATA

upper sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA17G00490.2 (Glycine max), 3'ss of exon 6
---gttggtcttg---ttgtttcaaagtctcaagagttttcgccgagacatacttgattaaaac---tcacaaactgataatgggatt-------catagGCAATTGAAGCAGCGATAGAGCTTAATCTGAAAACGGTAGAAGCTGGAGCGCAGGGTGAGCATAAGATTCAGCGAGGCTACCTTCCCGTTAAAACATATA
    ||   ||||   |  | ||  | |   |     ||  |  | |  |||  | |   ||||   | | | ||| | |||    ||       || |||||||||||||||| || || || ||||| ||||| ||||| || ||||| |||||||| || |||||||||||  | || ||||| || |  || | ||
aaaattatacttgatctcttctctcatttgtacataattcagatgtggtatatatcagggaaacaaataatatacttacaattttgttttgacgtcacagGCAATTGAAGCAGCTATTGAACTCAATCTTAAAACAGTAGAGGCAGGAGCTCAGGGTGAACACAAGATTCAGCGGTGATATCTTCCTGTGACTACTTTTA

upper sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv12s0035g01750.t01 (Vitis vinifera), 3'ss of exon 10
----gttggtct-tgttgtttcaaagtctcaagagttttcgccgagacatacttgattaaaactcacaaactgat---------aatgggatt--catagGCAATTGAAGCAGCGATAGAGCTTAATCTGAAAACGGTAGAAGCTGGAGCGCAGGGTGAGCATAAGATTCAGCGAGGCTACCTTCCCGTTAAAACATATA
     || || | |   |    ||||     ||| | |   | |    | |  ||||  ||| |       | ||           ||  |||  || ||||||| |||||||| || || ||||||||||| |  ||||| || ||||| || |||||||||||||||||||| |||||  | || || | ||| || |
attcattagtgtataacgacataaagaagtgagaatgtgaactgcttgaaaagtgatataaatttgtttctttattttatgtgtggtgatattatcacagGCAATAGAAGCAGCTATTGAACTTAATCTGAACAAAGTAGAGGCAGGAGCTCAAGGTGAGCATAAGATTCAGCGTGGCTATATGCCTGTGACAACTTACA

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|125033241|gb|EL105510.1|EL105510
EST:     ACTCCTATTATCCTAGTCTCCATTTTGAAGTCATGCTATTACCAG                         GCAATTGAAGCAGCGATAGAGCTTAATCTGAAAACGGTAGAAG
genomic: ACTCCTATTATCCTAGTCTCCATTTTGAAG-CATGCTATTACCAGgttggtcttg ... ggattcatagGCAATTGAAGCAGCGATAGAGCTTAATCTGAAAACGGTAGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttcgccgagacatacttgattaaaactcacaaactgataatgggattcatagGCAATTGAAGCAGCGATAGAGCTTAATCTGAAAACGGTAGAAGCTGGAGCGCAGGGTGAGCATAAGATTCAGCGAGGCTACCTTCCCGTTAAAACATATA
              atacttgattaaaa  TA-rich tract