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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccgtattttacaaacttcatataaagtttatatcatccatctgaccattgtgattttttgggactgattatgctttctttttcttctgtgatagTGCACCGATTTTCCCACAGGTGATCACAGCTCATCCACAAGAACCGAATCAATTAGCGGTTGGACTGTCTGATGGTTCGGTTAAAGTGATTGAGCCATCA

Basic information

species Arabidopsis thaliana
transcript AT3G16830.1
intron # 24
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G16830.1 (Arabidopsis thaliana), 3'ss of exon 24
lower sequence: LOC_Os01g15020.2 (Oryza sativa), 3'ss of exon 24
--------------gtaccgtattttacaaacttcatataaagtttatatcatccatctgaccattgtgattttttgggactgattatgctttctttttcttctgtgatagTGCACCGATTTTCCCACAGGTGATCACAGCTCATCCACAAGAACCGAATCAATTAGCGGTTGGACTGTCTGATGGTTCGGTTAAAGTGATTGAGCCATCA
                 |||    ||| ||  ||    ||   ||  |   ||  ||    |||| | | ||  |    |   |  ||  | | |||  || |      | | || || | | ||| |  ||  || | || |||||||| ||  |||||||||| |||||||| || || ||||| || |||||||||||||| ||    
ttttgacatttgaaaccccgctcattagaaggtt-gcgta---ttattgctatttattcctccatcgagcttcatctaaa---aacata-tatgtttccctgcaccagCAATCCATCGGTCTACCCTCTTGTCGTCGCTGCACATCCACAGGAGTCGAATCAATTTGCGGTTGGGCTTTCAGATGGATCTGTTAAAGTGATTGAACCC---
















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|125295572|gb|EL309657.1|EL309657
EST:     TGCCTCAACCTACACCAAACAG                         TGCACCGATTTTCCCACAGGTGATCACAGCTCATCCACAAGAACCGAATCA
genomic: TGCCTCAACCTACACCAAACAGgtaccgtatt ... tctgtgatagTGCACCGATTTTCCCACAGGTGATCACAGCTCATCCACAAGAACCGAATCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgaccattgtgattttttgggactgattatgctttctttttcttctgtgatagTGCACCGATTTTCCCACAGGTGATCACAGCTCATCCACAAGAACCGAATCAATTAGCGGTTGGACTGTCTGATGGTTCGGTTAAAGTGATTGAGCCATCA
                      gactgat  putative branch site (score: 3)
                            ttatgctttctttttc  CT-rich tract
           tgatttttt  TA-rich tract