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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttagattaatttgcatgaatattaatctcctataccttatcaaaatgatgaaacttagtcaattttcaaaacaattgtcgttgtggatgcagGCAATAGCTGCAATGATGCGTGCACAGGAGGCTGATCCCACAAATCTAGAGGTGCTTCTTGCGCTTGGTGTGAGTCATACCAACG

Basic information

species Arabidopsis thaliana
transcript AT5G56290.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56290.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os08g39080.2 (Oryza sativa), 3'ss of exon 8
----gttagttagattaatttgcatga-atattaatctcctataccttatcaaaatgatgaaacttagtcaattttcaaaacaattgtcgttgtggatgcagGCAATAGCTGCAATGATGCGTGCACAGGAGGCTGATCCCACAAATCTAGAGGTGCTTCTTGCGCTTGGTGTGAGTCATACCAACG
     |||| || |||  |  |||  |  |  ||      |||    ||| |     |||     |  | ||       |     | |   | ||  | |||||||| || ||||||||||||||||| || |||||||| ||||| || || || |||||||| |||||||| ||||| || || |
tatttttagctaaattt-taagcaccatgtgatatggcattatgatctatgagttccatgct-tatgtttaacacaaggagatgctattactttgctttcagGCAATCGCAGCAATGATGCGTGCACAAGAAGCTGATCCAACAAACCTGGAAGTTCTTCTTGCACTTGGTGTCAGTCACACGAATG

upper sequence: AT5G56290.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv19s0015g01940.t01 (Vitis vinifera), 3'ss of exon 9
----gttagttagattaatttgcatgaatattaat-ctcctataccttatcaaaatgatgaaacttagtcaattttcaaaacaattgtcgttgtggatgcagGCAATAGCTGCAATGATGCGTGCACAGGAGGCTGATCCCACAAATCTAGAGGTGCTTCTTGCGCTTGGTGTGAGTCATACCAACG
      |  | |  |  |  ||  || || ||  | |  |||    ||   |  |   |    |||      || |    |  |   | | |   | ||||||| || ||  | |||||||||||||| || | ||| || ||||| || || ||||||||||||||||| ||||||||||| || |
tcatactgatcatgtaga--tgtttgcattttgttacaactaagttttggtatgactgttgctctttcatttttatggtgaagaaacttgctcctgctgcagGCTATTGCATCCATGATGCGTGCACAAGAAGTTGAGCCAACAAACCTGGAAGTGCTTCTTGCGCTTGGCGTGAGTCATACAAATG
















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|125213488|gb|EL228320.1|EL228320
EST:     ACTTGGGGTCACACACGCAGAGAACGATGATGATCAACAG                         GCAATAGCTGCAATGATGCGTGCACAGGAGGCTGATCCCACAAA
genomic: ACTTGGGGTCACACACGCAGAGAACGATGATGATCAACAGgttagttaga ... gtggatgcagGCAATAGCTGCAATGATGCGTGCACAGGAGGCTGATCCCACAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcaaaatgatgaaacttagtcaattttcaaaacaattgtcgttgtggatgcagGCAATAGCTGCAATGATGCGTGCACAGGAGGCTGATCCCACAAATCTAGAGGTGCTTCTTGCGCTTGGTGTGAGTCATACCAACG
                       aattttcaaaacaatt  TA-rich tract