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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccacccgagattcaacttgaaattgacacttaaattaaggacttgtgattctgattatcttattatttcctgtatcgaatttgcagGGCTATGGTACACTTCTGATGGAAGAAGCAGAGAGGATTGCTAGAAGAGAACATCGATCTAACAAAATCGGTGTGATTTCTGGTGTAGGAACCAGACATT

Basic information

species Arabidopsis thaliana
transcript AT5G50320.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G50320.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 3'ss of exon 8
----gtaccacccgagattcaacttgaaat-tgacacttaaattaag-gacttgtgattctgatta----tcttattatttcctgtatcga-atttgcagGGCTATGGTACACTTCTGATGGAAGAAGCAGAGAGGATTGCTAGAAGAGAACATCGATCTAACAAAATCGGTGTGATTTCTGGTGTAGGAACCAGACATT
     |  ||   |  |     ||  | || |    | ||| || |  | |  |  ||    ||||    ||| ||| |||  ||  || | ||   ||||| |||||||| ||| |||||||||||||||| || |||||| | |  || ||||| || || ||||||| ||| || || || || || ||  | || |
ttgacttgcaattggtacatgcctatagatatacttcctaacttgattgtccagaaatataaattacatttctgatttttttttgactcaacatcgacagGGTTATGGTACTCTTTTGATGGAAGAAGCAGAAAGAATTGCTCGCAAGGAGCATCGTTCAAAGAAAATCGCTGTTATATCAGGAGTTGGGACTCGCCACT
















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|125006926|gb|EL079195.1|EL079195
EST:     AGATGCTGATAAGTTGCAACATCAG                         GGCTATGGTACACTTCTGATGGAAGAAGCAGAGAGGATTGCTAGAAGAGAA
genomic: AGATGCTGATAAGTTGCAACATCAGgtaccacccg ... gaatttgcagGGCTATGGTACACTTCTGATGGAAGAAGCAGAGAGGATTGCTAGAAGAGAA
EST: gi|86084702|gb|DR380461.1|DR380461
EST:     GAACAGCTGTACCAGTTCATGGTCGAGATGCTGATAAGTTGCAACATCAG                         GGCTATGGTACACTTCTGATGGAAGAAGCAGAGAGGATTGCTAGAAGAGAA
genomic: GAACAGCTGTACCAGTTCATGGTCGAGATGCTGATAAGTTGCAACATCAGgtaccacccg ... gaatttgcagGGCTATGGTACACTTCTGATGGAAGAAGCAGAGAGGATTGCTAGAAGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattaaggacttgtgattctgattatcttattatttcctgtatcgaatttgcagGGCTATGGTACACTTCTGATGGAAGAAGCAGAGAGGATTGCTAGAAGAGAACATCGATCTAACAAAATCGGTGTGATTTCTGGTGTAGGAACCAGACATT
                 ttctgat  putative branch site (score: 3)
                attctgattatcttat  TA-rich tract