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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaagtctgtgaattcatcatacaaaatgatctcatcaaatagtataattcctgatgaaattgttttattgacgtattatgtgtgttggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAAGCAAAAACTAGCCTTCTGGATCAATATCTACAACGCATGTATCATGCAT

Basic information

species Arabidopsis thaliana
transcript AT2G39690.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G39690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA02G41560.1 (Glycine max), 3'ss of exon 4
-------------------gtattaagtctgtgaat---tcatcatacaaaatgatctcatca-aatagtataattcctgatgaaat---tgttttattgacgtattatgtgtgtt-ggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAAGCAAAAACTAGCCTTCTGGATCAATATCTACAACGCATGTATCATGCAT
                   |||   ||| |   |||   |  | | ||||  |   |   |   |||  |||| |  || ||   |    | | || ||    | | ||   | ||    || ||||| ||| | ||  |||  || |||||||| ||||| |||||||||||||| ||  | || ||||||||||| |||||||| || || || ||| ||
gttttcactaacctaccaagtacatagtttaccaataactatttaaacaatgtctacatgttgtaatgttatactatcttattttacctatttcttcttactatctaattcctctttaatagggttttaatgcataagCTATGTGATGTAGATTTAAGTTTCTTGACCTACAAGCAGAAGTTCGCATTCTGGATCAACATCTACAATGCCTGCATAATGAAT
















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|116384467|gb|EG427059.1|EG427059
EST:     GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAG                         CGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
genomic: GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAGgtattaagtc ... gtgttggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
EST: gi|116384469|gb|EG427061.1|EG427061
EST:     GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAG                         CGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
genomic: GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAGgtattaagtc ... gtgttggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
EST: gi|116384466|gb|EG427058.1|EG427058
EST:     GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAG                         CGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
genomic: GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAGgtattaagtc ... gtgttggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
EST: gi|116383991|gb|EG426583.1|EG426583
EST:     GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAG                         CGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
genomic: GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAGgtattaagtc ... gtgttggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
EST: gi|116383984|gb|EG426576.1|EG426576
EST:     GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAG                         CGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
genomic: GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAGgtattaagtc ... gtgttggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
EST: gi|116384465|gb|EG427057.1|EG427057
EST:     GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAG                         CGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA
genomic: GATGTGACACATTTCACCCATTATTGTTCACCGGCTGTTCCACGCTTGAGgtattaagtc ... gtgttggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatagtataattcctgatgaaattgttttattgacgtattatgtgtgttggcagCGTTTTGATGGAGAAATTATCGGAGGTAGATTTGAGTTTTTTGACCTACAAGCAAAAACTAGCCTTCTGGATCAATATCTACAACGCATGTATCATGCAT
                             tattgac  putative branch site (score: 2)
                 atgaaattgttttatt  TA-rich tract