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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaaattacgctgtttcaattcaatgattagctcaatactgatgcggtttagtgaaccatgctatctatttgactatctaatgtgttttcctcttttcagATTCTGCTGAGAAGCCAACACACATTCGGTTTCTTGTATCCAATGCGGCAGCTGGTTCCGTCATTGGGAAAGGTGGCTCGACCATCACTGAATTTCAGGC

Basic information

species Arabidopsis thaliana
transcript AT5G04430.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G04430.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G34220.2 (Glycine max), 3'ss of exon 1
ttaaattacgctgtttcaattcaatgattagctcaatactgatgcggtttagtgaaccatgctatctatttgactatctaatgtgt-tttcctcttttcagATTCTGCTGAGAAGCCAACACACATTCGGTTTCTTGTATCCAATGCGGCAGCTGGTTCCGTCATTGGGAAAGGTGGCTCGACCATCACTGAATTTCAGGC
|  |||       ||  | ||   |  | | ||  || |   ||      |  |    |   ||  | ||||  ||   | | | | |||  |  ||||||||||||  |||||||||||| ||||| ||||||| ||||| ||  | || |||||||| || ||||| || || || || || |||||||| |||||| |
tctaatatttgaattatattttttttctgaactgcatccatttgtacgcaaaagttttaacttaattctttg-ttactaattttatgtttatttctttcagATTCTGAGGAGAAGCCAACATACATTAGGTTTCTAGTATCAAACTCTGCGGCTGGTTCAGTTATTGGAAAGGGCGGTTCAACTATCACTGATTTTCAGTC
















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|47829182|gb|CK118866.1|CK118866
EST:     GGAAGAGCTGGCGAAGAGATCCCCTGAACCGCATGATTCTTCCGAAGCTG                         ATTCTGCTGAGAAGCCAACACACATTCGCTTTCTTGTATCCAATGCGGCAG
genomic: GGAAGAGCTGGCTAAGAGATCCCCTGAACCGCATGATTCTTCCGAAGCTGgtattttcga ... ctcttttcagATTCTGCTGAGAAGCCAACACACATTCGGTTTCTTGTATCCAATGCGGCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttagtgaaccatgctatctatttgactatctaatgtgttttcctcttttcagATTCTGCTGAGAAGCCAACACACATTCGGTTTCTTGTATCCAATGCGGCAGCTGGTTCCGTCATTGGGAAAGGTGGCTCGACCATCACTGAATTTCAGGC
                              atctaat  putative branch site (score: 3)
                                    tgtgttttcctctttt  CT-rich tract
                 tatctattt  TA-rich tract