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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaaatcaatacttcttatatatctcttgaaagtttctcattcgataattatttctacacatgagattgactcttagtcaaattatgtctctgaagtttttctctttcgctgtagGCAAAACTGCGGCTGAAGACTCATAACCAAAATGTGAGTGATGTGCTTTCTATGTACGACGATATAACAATTAAG

Basic information

species Arabidopsis thaliana
transcript AT5G47840.1
intron # 4
splice site 3'
intron type U2

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|47832013|gb|CK121697.1|CK121697
EST:     AAGAGATTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAG                         GCAAAACTGCGGCTGAAGACTCATAACCAAAATGTGAGTGATGTGCTTTCT
genomic: AAGAGATTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAGgcaaatcaat ... ttcgctgtagGCAAAACTGCGGCTGAAGACTCATAACCAAAATGTGAGTGATGTGCTTTCT
EST: gi|125323323|gb|EL337405.1|EL337405
EST:     GAGATTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAAGAAAG                         GCAAAACTGCGGCTGAAGACTCATAAC
genomic: GAGATTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGA-GAA-Ggcaaatcaat ... ttcgctgtagGCAAAACTGCGGCTGAAGACTCATAAC
EST: gi|164177631|gb|EL983303.1|EL983303
EST:     AAGAGATTGCTGCTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAG                         GCAAAACTGCGGCTGAAGACTCATAACCAAAATG
genomic: AAGAGATTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAGgcaaatcaat ... ttcgctgtagGCAAAACTGCGGCTGAAGACTCATAACCAAAATG
EST: gi|164010048|gb|ES119910.1|ES119910
EST:     AAGAGATTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAG                         GCAAAACTGCGGCTGAAGACTCATAACCAAAA
genomic: AAGAGATTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAGgcaaatcaat ... ttcgctgtagGCAAAACTGCGGCTGAAGACTCATAACCAAAA
EST: gi|125064077|gb|EL131830.1|EL131830
EST:     TTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAG                         GCAAAACTGCGGCTGAAGACTCATAACCAAAATGTGAGTGATGTGCTTTCT
genomic: TTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAGgcaaatcaat ... ttcgctgtagGCAAAACTGCGGCTGAAGACTCATAACCAAAATGTGAGTGATGTGCTTTCT
EST: gi|124825906|gb|EH910772.1|EH910772
EST:     TGATACCGAAGAGAAG                         GCAAAACTGCGGCTGAAGACTCATAACCAAAATGTGAGTGATGTGCTTTCT
genomic: TGATACCGAAGAGAAGgcaaatcaat ... ttcgctgtagGCAAAACTGCGGCTGAAGACTCATAACCAAAATGTGAGTGATGTGCTTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgagattgactcttagtcaaattatgtctctgaagtttttctctttcgctgtagGCAAAACTGCGGCTGAAGACTCATAACCAAAATGTGAGTGATGTGCTTTCTATGTACGACGATATAACAATTAAG
    gattgac  putative branch site (score: 3)
                                    tttttctctttcgctg  putative PPT
                 tcaaattat  TA-rich tract