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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaggagaattattctctttcgcttgaaataggttcgaattgtggtgttatgattacttatgccttactccattcatttaccagGCAATCCAAATAGTTTCATGGTTGGCAAAGTATAAATACAATTCCCTTAAAAAACATAAGCTTGTCATACCAATCTTGCAAGTTATGTGCCCTTTACTCG

Basic information

species Arabidopsis thaliana
transcript AT4G27640.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G27640.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv12s0034g02160.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------------------------------gttaggagaattattctctttcgcttgaaataggttcgaattgtg---gtgttatgattacttatgccttactccattcattt------------accagGCAATCCAAATAGTTTCATGGTTGGCAAAGTATAAATACAATTCCCTTAAAAAACATAAGCTTGTCATACCAATCTTGCAAGTTATGTGCCCTTTACTCG
                                                              || ||   || |||   ||  | | |  | | || |   || |    ||     |||     ||  |||  ||||| | |||            | ||||| || || ||  |||||||| | ||||| || || | |||||| || ||||| |||||||| || || |||||  |||||||||||||||| ||||| |
gttaggaaggagatgaaatataatttttcctgtatttctattgttctagccaatcctaactatttgggatatcatttcattgagttggtgagatgtactttttctatttgttcctggatcctgaatatcttgttccatccttttgttttgaaatatatcagGCTATTCAGATCATTTCATGGCTAGCAAAATACAAGTCCAATTCTCTAAAAAAGCATAAGCTGGTTATCCCAATACTGCAAGTTATGTGCCCATTACTTG
















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|116397052|gb|EG439644.1|EG439644
EST:     CTCTTGAATTTTCCTGTAACCAAAATCTGGAAAGTAGCACCCGTCACCAG                         GCAATCCAAATAGTTTCATGGTTGGCAAAGTATAAATACAATTCCCTTAAA
genomic: CTCTTGAAGTTTCCTGTAACCAAAATCTGGAAAGTAGCACCCGTCACCAGgttaggagaa ... catttaccagGCAATCCAAATAGTTTCATGGTTGGCAAAGTATAAATACAATTCCCTTAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggttcgaattgtggtgttatgattacttatgccttactccattcatttaccagGCAATCCAAATAGTTTCATGGTTGGCAAAGTATAAATACAATTCCCTTAAAAAACATAAGCTTGTCATACCAATCTTGCAAGTTATGTGCCCTTTACTCG
                                gccttac  putative branch site (score: 3)
                                      ctccattc  CT-rich tract
                  ttatgattacttat  TA-rich tract