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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgcttctttctcattcttaatccgttgttgctgcttctcttccttcataaatggctgattatgagaattggttggttttttagGTATGTGTTAGCAAGACCAGCTGGGAAAAGATGTTTTGTAGTTTCATCTGATGGAACAACTGTTAGTAGAGTACGAAATGGGTCCACTTTGCATCTTTTC

Basic information

species Arabidopsis thaliana
transcript AT4G24880.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G24880.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv17s0000g01420.t01 (Vitis vinifera), 3'ss of exon 1
--gtactgcttctttctcat--tcttaatccgttgttgc----tgcttctcttccttcataaatggctgatta---tgagaattggttggt---tttttagGTATGTGTTAGCAAGACCAGCTGGGAAAAGATGTTTTGTAGTTTCATCTGATGGAACAACTGTTAGTAGAGTACGAAATGGGTCCACTTTGCATCTTTTC
  | | |||||   | ||||  ||||     |   |       ||    | || | |  |||||||  ||      |   | |||| | ||   ||| ||||||||| |||||| | ||  |||| ||| |||||||||| ||||| |||||||||||||| ||||||||  |||| ||||| ||    ||||| | ||||
aagca-tgctttaatttcatgatcttggagagaaataatgatatgtgattgtttccttgtaaatggaggaaaggattttcacttggcttgtgcttttctagGTATGTATTAGCACGGCCCACTGGAAAACGATGTTTTGTTGTTTCTTCTGATGGAACAACAGTTAGTAGGCTACGCAATGGCTCTGTCTTGCACCATTTC
















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|86036461|gb|DR332214.1|DR332214
EST:     ATGTTACCTGAATGGATGATCGACGTCCCTGATAATTTAAGCCAAGATTG                         GTATGTGTTAGCAAGACCAGCTGGGAAAAGATGTTTTGTAGTTTCATCTGA
genomic: ATGTTACCTGAATGGATGATCGACGTCCCTGATAATTTAAGCCAAGATTGgtactgcttc ... ggttttttagGTATGTGTTAGCAAGACCAGCTGGGAAAAGATGTTTTGTAGTTTCATCTGA
EST: gi|86036458|gb|DR332211.1|DR332211
EST:     ATGTTACCTGAATGGATGATCGACGTCCCTGATAATTTAAGCCAAGATTG                         GTATGTGTTAGCAAGACC-G--GG-AAAAGATGTTTTGTAGTTTCATCTGA
genomic: ATGTTACCTGAATGGATGATCGACGTCCCTGATAATTTAAGCCAAGATTGgtactgcttc ... ggttttttagGTATGTGTTAGCAAGACCAGCTGGGAAAAGATGTTTTGTAGTTTCATCTGA
EST: gi|86036459|gb|DR332212.1|DR332212
EST:     ATGTTACCTGAATGGATGATCGACGTCCCTGATAATTTAAGCCAAGATTG                         GTATGTGTTAGCAAGACCAGCTGGGAAAAGATGTTTTGTAGTTTCATCTGA
genomic: ATGTTACCTGAATGGATGATCGACGTCCCTGATAATTTAAGCCAAGATTGgtactgcttc ... ggttttttagGTATGTGTTAGCAAGACCAGCTGGGAAAAGATGTTTTGTAGTTTCATCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctgcttctcttccttcataaatggctgattatgagaattggttggttttttagGTATGTGTTAGCAAGACCAGCTGGGAAAAGATGTTTTGTAGTTTCATCTGATGGAACAACTGTTAGTAGAGTACGAAATGGGTCCACTTTGCATCTTTTC
                        ggctgat  putative branch site (score: 4)
                                               tttttt  putative PPT
               ttcataaat  TA-rich tract