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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgacttatggtttctgttaaagttcctgttatggtaatagagaggaatgtgttgtttactatttgttggtattgactctgtttttgttactctgtttcagACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTATCATGGTCTTGATAATGAAAAAGTTTTACAGTTTGATGATGCTATTAAGTTCTTAG

Basic information

species Arabidopsis thaliana
transcript AT2G04550.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G04550.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ30059 (Selaginella moellendorffii), 3'ss of exon 1
tgacttatggtttctgttaaagttcctgttatggtaatagagaggaatgtgttgtttactatttgttggtattgactctgtttttgttactctgtttcagACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTATCATGGTCTTGATAATGAAAAAGTTTTACAGTTTGATGATGCTATTAAGTTCTTAG
                                         |    || | |  | | ||  ||  | |  |   |||    | || |  | ||| | |||| ||  | |  |||||||||||||||| |||||| |||||||||||  |  |  |  | || | |   |||| | | || ||     |  | ||| | |
-----------------------------------------gtaagatctctcctctcctcctttctagggtatcctcatactgtggtg-tttgtcttagACTGTAGCGAGATGCCAGAATCTCTACAAGAATTCTTTCACTTATCACTGCATACAAGAGGAGAGA---TTACCGCTGGAAGAGTGCCTGGATTTCATCG
















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|86021655|gb|DR317401.1|DR317401
EST:     CTTCTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAAT                         ACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTATCATGGT
genomic: CTTCTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAATgtgagtttct ... tctgtttcagACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTATCATGGT
EST: gi|164069213|gb|ES171607.1|ES171607
EST:     CTTCTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAAT                         ACGGTTCCTATGTGCCAGAATCTCTACAGGAATTC
genomic: CTTCTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAATgtgagtttct ... tctgtttcagACGGTTCCTATGTGCCAGAATCTCTACAGGAATTC
EST: gi|125280926|gb|EL295011.1|EL295011
EST:     CTTCTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAAT                         ACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTA
genomic: CTTCTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAATgtgagtttct ... tctgtttcagACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTA
EST: gi|125326589|gb|EL340669.1|EL340669
EST:     CTGAGCTTCTTAAGACTCAAGGAATACTCTCGTGTTCTTAAT                         ACGGTTCCTATGTGC
genomic: CTGAGCTTCTTAAGACTCAAGGAAT-CTCTCGTGTTCTTAATgtgagtttct ... tctgtttcagACGGTTCCTATGTGC
EST: gi|124824938|gb|EH909804.1|EH909804
EST:     CTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAAT                         ACGGTTCCTATGTGCCAAAATCTCTACAGGAATTCATTCACTTATCATGGT
genomic: CTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAATgtgagtttct ... tctgtttcagACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTATCATGGT
EST: gi|19876233|gb|AU237064.1|AU237064
EST:     CTTCTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAAT                         ACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTATCATGGT
genomic: CTTCTCGCTCTGAGCTTCTTAAGACTCAAGGAATCTCTCGTGTTCTTAATgtgagtttct ... tctgtttcagACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTATCATGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtgttgtttactatttgttggtattgactctgtttttgttactctgtttcagACGGTTCCTATGTGCCAGAATCTCTACAGGAATTCATTCACTTATCATGGTCTTGATAATGAAAAAGTTTTACAGTTTGATGATGCTATTAAGTTCTTAG
                        tattgac  putative branch site (score: 2)
                                            ctctgtttc  putative PPT
         tttactattt  TA-rich tract