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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacacgttggatctcattgttctttgttttttattggttagagaaaattttcttattgagttttgatttatgcagTATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAGGCGACATAACCTGTGAAATATGTCACCAG

Basic information

species Arabidopsis thaliana
transcript AT3G47550.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G47550.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
--------------gtaaacacgttggatctcattgt-tctttgttttttattggttaga-------gaaaattttcttattgagttttgatttatgcagTATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAGGCGACATAACCTGTGAAATATGTCACCAG
               |||    ||    |  |||  | |    |      ||||  || |       |  |||||| ||||      ||  |||   |||||||||||| |  | ||||| || |||||||| ||||||||||| || |||| ||||||||| || ||  ||
gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
















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|124998884|gb|EL071153.1|EL071153
EST:     ATAGTACTAAGAACCTTGAAGCTCCTTGTGCTTGTAATGGTAGTTTAAAG                         TATGCTCACCG
genomic: ATAGTACTAAGAACCTTGAAGCTCCTTGTGCTTGTAATGGTAGTTTAAAGgtaaacacgt ... atttatgcagTATGCTCACCG
EST: gi|301501426|gb|HO206966.1|HO206966
EST:     ATAGTACTAAGAACCTTGAAGCTCCTTGTGCTTGTAATGGTAGTTTAAAG                         TATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAGGCGACATA
genomic: ATAGTACTAAGAACCTTGAAGCTCCTTGTGCTTGTAATGGTAGTTTAAAGgtaaacacgt ... atttatgcagTATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAGGCGACATA
EST: gi|116399259|gb|EG441851.1|EG441851
EST:     ATAGTACTAAGAACCTTGAAGCTCCTTGTGCTTGTAATGGTAGTTTAAAG                         TATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAGGCGACATA
genomic: ATAGTACTAAGAACCTTGAAGCTCCTTGTGCTTGTAATGGTAGTTTAAAGgtaaacacgt ... atttatgcagTATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAGGCGACATA
EST: gi|125324016|gb|EL338096.1|EL338096
EST:     TAGTACTAAGAACCTTGAAGCTCCTTTGTGCTTGTAATGGTAGTTTAAAG                         TATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAG
genomic: TAGTACTAAGAACCTTGAAGCTCC-TTGTGCTTGTAATGGTAGTTTAAAGgtaaacacgt ... atttatgcagTATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttgttttttattggttagagaaaattttcttattgagttttgatttatgcagTATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAGGCGACATAACCTGTGAAATATGTCACCAG
                                        ttttgat  putative branch site (score: 4)
                       aaaattttcttattga  TA-rich tract