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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttcttctggttgtgtgtagaacaagaataagcttgacaagccatgactactttcagattatgcatcgtgttgacgcttattatgaacaatcaatcacagGTTGCAAGAACCGGTCGTGTGGCATTGGCTCGTGAATCGGGAGTGGACTCCAAGTACCTTCGTGGATACTCCTTTCCTTTAACAGGCTAAACCGTTGCAG

Basic information

species Arabidopsis thaliana
transcript AT2G31810.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G31810.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os02g39570.1 (Oryza sativa), 3'ss of exon 11
cttcttctggttgtgtgtagaacaagaataagcttgacaagccatgactactttcagattatgca-----tcgtgttgacgcttattatgaacaatcaatcacagGTTGCAAGAACCGGTCGTGTGGCATTGGCTCGTGAATCGGGAGTGGACTCCAAGTACCTTCGTGGATACTCCTTTCCTTTAACAGGCTAAACCGTTGCAG
   ||     || | |  | ||     | ||    ||    | ||  | || |  |   ||  ||      |  | | | || ||||  |  ||    | ||||||| || ||||| || || |||||  |||  || ||||| || || || ||||||||||||||||| ||||||||||| ||   |  | |   | |   ||
--cctcactattttttagataatggatagaaatccgatct-ctatatccacatgtaatatacccagctttcctcgctaatgcatattccgtcca--tgaccacagGTCGCCAGAACAGGGCGAGTGGCGCTGGTCCGCGAATCCGGTGTCGATTCCAAGTACCTTCGTGGCTACTCCTTTCCGTTGTAATCCCAGGTCTTGTGAG
















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|124977182|gb|EL050535.1|EL050535
EST:     ACAAGATGGTTGCACTGCAAAGGTTATTGGAGCCCTATGGTATATGTGAG                         GTTGCAAGAACCGGTCGTGTGGCATTGGCTCGTGAATCGGGAG
genomic: ACAAGATGGTTGCACTGCAAAGGTTATTGGAGCCCTATGGTATATGTGAGgtttgtttcg ... tcaatcacagGTTGCAAGAACCGGTCGTGTGGCATTGGCTCGTGAATCGGGAG
EST: gi|164042024|gb|ES155274.1|ES155274
EST:     TGGTTGCACTGCAAAGGTTATTGGAGCCCTATGGTATATGTGAG                         GTTGCAAGAACCGGTCGTGTGGCATTGGCTCGTGAATCGGGAGTGGACTCC
genomic: TGGTTGCACTGCAAAGGTTATTGGAGCCCTATGGTATATGTGAGgtttgtttcg ... tcaatcacagGTTGCAAGAACCGGTCGTGTGGCATTGGCTCGTGAATCGGGAGTGGACTCC
EST: gi|124737402|gb|EH828804.1|EH828804
EST:     ACAAGATGGTTGCACTGCAAAGGTTATTGGAGCCCTATGGTATATGTGAG                         GTTGCAAGAACCGGTCGT
genomic: ACAAGATGGTTGCACTGCAAAGGTTATTGGAGCCCTATGGTATATGTGAGgtttgtttcg ... tcaatcacagGTTGCAAGAACCGGTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactactttcagattatgcatcgtgttgacgcttattatgaacaatcaatcacagGTTGCAAGAACCGGTCGTGTGGCATTGGCTCGTGAATCGGGAGTGGACTCCAAGTACCTTCGTGGATACTCCTTTCCTTTAACAGGCTAAACCGTTGCAG
                       tgttgac  putative branch site (score: 3)
                                ttattatgaacaat  TA-rich tract