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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGGATCACTGCTCCAGACACGAAGAATCCACTCTCTGATCCTTACCCGTTTAATTTGATGTTTCAAACATCCATTGGCCCATCTGGTTTGATTCCTGGgtgagtatttttcatgttataatcatttctgagccactttctttcctgagtttgttatcaaattactcctcttttgtgtttcag

Basic information

species Arabidopsis thaliana
transcript AT1G29880.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G29880.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G171688_T01 (Zea mays), 5'ss of exon 2
ATGGGATCACTGCTCCAGACACGAAGAATCCACTCTCTGATCCTTACCCGTTTAATTTGATGTTTCAAACATCCATTGGCCCATCTGGTTTGATTCCTGGgtgagtatttttcatgttataatcatttctgagccactttctttcctgagtttgttatcaaattact--cctcttttgtgtttcag
||  |||   |||||||||||| |||||  || | || ||||| ||||| |||||| | ||||||||||| |||||||| ||||| |||||||  || |||| ||    |  |  | |  |   ||||| |      |    |   |   |  |   | |   ||    | || || || || |||
ATAAGATTGTTGCTCCAGACACCAAGAACTCATTATCAGATCCATACCCTTTTAATCTCATGTTTCAAACTTCCATTGGACCATCAGGTTTGAGCCCAGGgtaagacaataacg-gctgaataaatttcagtatatttccactatgttcatccggcttaagtgtatctgcttccttggttttgcag

upper sequence: AT1G29880.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv01s0150g00150.t01 (Vitis vinifera), 5'ss of exon 2
ATGGGATCACTGCTCCAGACACGAAGAATCCACTCTCTGATCCTTACCCGTTTAATTTGATGTTTCAAACATCCATTGGCCCATCTGGTTTGATTCCTGGgtgagtatttttcatgttataatcatttctgagccactttctttcctgagtttgt-tatcaaattactcctcttttgtgtttcag
|||| || ||||| || || || ||||  || ||||| |||||||| || || || || |||||||||||||| || ||||| ||||| ||||| ||||||| || ||||      ||   ||   |||  ||     |||  |   |  |  |  |  ||| ||  |   ||  | || | |||
ATGGCATTACTGCACCTGAAACAAAGAGCCCGCTCTCCGATCCTTATCCTTTCAACTTAATGTTTCAAACATCAATAGGCCCTTCTGGCTTGATCCCTGGgtaaggattta----atttctattgcttc--agttgtattcaatttagtataggcatgccaatttcttttgctcatctgatgcag
















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|116404822|gb|EG447414.1|EG447414
EST:     TTTAATTTGATGTTTCAAACATCCATTGGCCCATCTGGTTTGATTCCTGG                         TTACATGCGTCCTGAAACTGCTCAAGGTATTTTTGTCAACTTTAAGGACTT
genomic: TTTAATTTGATGTTTCAAACATCCATTGGCCCATCTGGTTTGATTCCTGGgtgagtattt ... tgtgtttcagTTACATGCGTCCTGAAACTGCTCAAGGTATTTTTGTCAACTTTAAGGACTT