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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcgttcctatactggctactagtcattgtgatgtaggtagggttagcttacttacttgacaaagcaaatgtgtgtgttctgcagAAAATGTCTCAGTCCATGGACCTATGACTCAGTCCCAGTTCTTGGGTTCGCTTGGAATAAACTTCAGAGTTGATGCATTGCTACAGAATTGTAACGACGA

Basic information

species Arabidopsis thaliana
transcript AT3G28700.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G28700.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os01g40620.2 (Oryza sativa), 3'ss of exon 9
gttt-cgttcctatactggctactagtcattgtgatgtaggtagggttagctta--cttacttgacaaagcaaatgtgtgtgttctgcagAAAATGTCTCAGTCCATGGACCTATGACTCAGTCCCAGTTCTTGGGTTCGCTTGGAATAAACTTCAGAGTTGATGCATTGCTACAGAATTGTAACGACGA
|||| |     |||  |   | ||      | || | |    | |   ||   |   || |||   |   |     ||    |||||||||  || | || || ||||| || |||||||| |||||||||||||| || ||||| ||||||||| | || || ||  |||| || || |||      ||
gtttgcacagatatcttaaatcctttctgct-tgtttttctcatgtccagacaaacatttcttactaggtctgtcttgaactttctgcagATGATATTTCTGTTCATGGGCCAATGACTCAATCCCAGTTCTTGGGCTCTCTTGGTATAAACTTCCGTGTGGAAGCCCTGCTCCAAAACTGTGCTACTGA

upper sequence: AT3G28700.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GRMZM2G086052_T03 (Zea mays), 3'ss of exon 9
gtttcgttcctatactggc--tactagtcattgtgatgtaggtagggttagcttacttacttgacaaagcaaatgt----gtgtgttctgcagAAAATGTCTCAGTCCATGGACCTATGACTCAGTCCCAGTTCTTGGGTTCGCTTGGAATAAACTTCAGAGTTGATGCATTGCTACAGAATTGTAACGACGA
          |  ||||||  || || ||    |  ||  ||||     || ||||||||  || ||      | |    ||   ||  |||||  || |||| |||||||| || ||||| |||||||||||| ||||||| || || || |||||||| || || ||  | || ||||| || | ||| ||
-------gtatgcactggcgttattactctactttttgctggtatcaacag-ttacttacacgagaattttttttttctcgtaacttgcgcagACGATATCTCGGTCCATGGGCCAATGACGCAGTCCCAGTTCCTGGGTTCTCTCGGCATCAACTTCAGGGTAGAAGCTCTCCTGCAGAACTGCACCGAGGA
















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|86083128|gb|DR378887.1|DR378887
EST:     CCTTCAATAAAACACTCCGCTGAGGAAGCTTCAG                         AAAATGTCTCAGTCCATGGACCTATGACTCAGTCCCAGTTCTTGGGTTCGC
genomic: CCTTCAATAAAACACTCCGCTGAGGAAGCTTCAGgtttcgttcc ... tgttctgcagAAAATGTCTCAGTCCATGGACCTATGACTCAGTCCCAGTTCTTGGGTTCGC
EST: gi|164146171|gb|ES016104.1|ES016104
EST:     TGCTTATGTCGACTTTCCTTCAATAAAACACTCCGCTGAGGAAGCTTCAG                         AAAATGTCTCAGTCCATGGACCTATGACTCAGTCCC
genomic: TGCTTATGTCGACTTTCCTTCAATAAAACACTCCGCTGAGGAAGCTTCAGgtttcgttcc ... tgttctgcagAAAATGTCTCAGTCCATGGACCTATGACTCAGTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgtaggtagggttagcttacttacttgacaaagcaaatgtgtgtgttctgcagAAAATGTCTCAGTCCATGGACCTATGACTCAGTCCCAGTTCTTGGGTTCGCTTGGAATAAACTTCAGAGTTGATGCATTGCTACAGAATTGTAACGACGA
                  ttactta  TA-rich tract