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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCAATGGACAGTTCCGGACAGCGAGTTGCGTGAATCTCTTAGACTTGCTGTTGCGGAAGTTCTTTTACCTGCTTTCAGATCGTTTCTTAAACGTTTTGGgtaagatcaaaaacacttttaaacagattttgtttcgcgcttgtcaagaaagagttaaaagttttgtttctttggttgtgttgtgtatcag

Basic information

species Arabidopsis thaliana
transcript AT5G52340.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G52340.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os12g06270.1 (Oryza sativa), 5'ss of exon 12
GCCAATGGACAGTTCCGGACAGCGAGTTGCGTGAATCTCTTAGACTTGCTGTTGCGGAAGTTCTTTTACCTGCTTTCAGATCGTTTCTTAAACGTTTTGGgtaagatcaaaaacacttttaaacagattttgtttcgcgcttgtcaagaaagagttaaaagttttgtttctttggttgtgttgtgtatcag---------
  ||||||||  | || ||    || ||||| |||||||| |||||||||||||| |||||||| || || || |   | || ||  | |||||||||||||| | |    |    ||||   |     | |  |    ||  | |   |   | | | || ||      |     ||   || | ||  |         
CTCAATGGACTATACCTGATCAAGAATTGCGAGAATCTCTGAGACTTGCTGTTGCTGAAGTTCTCTTGCCAGCCTATCGGTCTTTCATCAAACGTTTTGGgtatgttggttagattttttcttctttcctggcatatgactatttagttacccggttacagattaaccgttcataatgaaatgggcatatgccatatgcc

upper sequence: AT5G52340.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA13G05040.1 (Glycine max), 5'ss of exon 10
GCCAATGGACAGTTCCGGACAGCGAGTTGCGTGAATCTCTTAGACTTGCTGTTGCGGAAGTTCTTTTACCTGCTTTCAGATCGTTTCTTAAACGTTTTGGgtaagatcaa--------aaacacttttaaacagattttgtttcgcgcttgtcaagaaagagttaaaagttttgtttctttggttgtgttgt-gtatcag----
  |||||||| || || || || || || ||||||||||||||| | |||||||| |||||  | |||||||| |  ||||| || |||||||| |||||||| | |  |        | | | ||||  ||| |  ||       | || ||   |||   ||  | ||||||||   ||       |||  || | |     
CTCAATGGACTGTCCCAGATAGTGAATTACGTGAATCTCTTAGATTGGCTGTTGCTGAAGTCTTGTTACCTGCGTATAGATCTTTCCTTAAACGATTTGGgtacgtttcagtttcgctatatatttttggacaaaacttag---aagtttttcttcaaatgatttta-gttttgttatcttatcataattgaagttttacctcg

upper sequence: AT5G52340.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv08s0007g02340.t01 (Vitis vinifera), 5'ss of exon 10
GCCAATGGACAGTTCCGGACAGCGAGTTGCGTGAATCTCTTAGACTTGCTGTTGCGGAAGTTCTTTTACCTGCTTTCAGATCGTTTCTTAAACGTTTTGGgtaa--gatcaaaaacacttttaaacagattttgtttcgcgcttgtcaagaaagagttaaaagttttgtttctttggttgtg--ttgtgtatcag--
  |||||||||||||| ||||| |||||||| || ||  | || || || ||||| ||||||||  ||||||| | |||||| ||  ||||||||||||||||   | |     |||||  | | | | | || |      | |||              |    ||| || ||    ||||  ||| || | |   
CTCAATGGACAGTTCCAGACAGTGAGTTGCGAGAGTCATTGAGGCTGGCAGTTGCTGAAGTTCTCCTACCTGCCTACAGATCTTTCATTAAACGTTTTGGgtatctgttttctcacactcgtgacctgttcttctaaaattcctgttgctt-----ccttatcccttgattgttcaaatgtggtttgggtgttacag

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|164099600|gb|ES030729.1|ES030729
EST:     GTTGCGGAAGTTCTTTTACCTGCTTTCAGATCGTTTCTTAAACGTTTTGG                         GCCGATGATAGAGAGTGGTAAGAACCCCCAGAAGTAT
genomic: GTTGCGGAAGTTCTTTTACCTGCTTTCAGATCGTTTCTTAAACGTTTTGGgtaagatcaa ... tgtgtatcagGCCGATGATAGAGAGTGGTAAGAACCCCCAGAAGTAT