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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctttttctattttgttctatgacttactctcgtttacacattgggacttatcgatattcttgtcttaaacagGGATTACTTGTCTCCAATTGATCTCATAAGAAACTACCCTCACTTAGTTGTGTTGGGAACTGGTCTTGCATTTGGATTCCTTGTG

Basic information

species Arabidopsis thaliana
transcript AT3G25585.4
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25585.4 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv01s0010g00950.t01 (Vitis vinifera), 3'ss of exon 13
gtaagtctttttctattttgttc--------tatgacttactctcgttta-cacattgggacttatcgata--ttcttgtcttaaacagGGATTACTTGTCTCCAATTGATCTCATAAGAAACTACCCTCACTTAGTTGTGTTGGGAACTGGTCTTGCATTTGGATTCCTTGTG
||| | ||   |||||  || |         ||||  |  || | |   | || ||| |   | || |     ||  | |||||  |||||||||||| ||||||  |||| | ||  | ||||| || || || ||| |  |||||||||| |||||||||||||||||||||
gtatgactcaatctatgctgcttgttttacatatgcttagcttttgaggagcatattagtcttgataggggagtttatttcttatgcagGGATTACTTATCTCCATCTGATATAATGGGGAACTATCCACATTTGGTTATAGTGGGAACTGGACTTGCATTTGGATTCCTTGTG
















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|116414049|gb|EG456641.1|EG456641
EST:     CTATATCCCTTAGTCACGTTAATTGCAGGAGTTCTGATTTG                         GGATTACTTGTCTCCAATTGATCTCATAAGAAACTACCCTCACTTAGTTGT
genomic: CTATATCCCTTAGTCACGTTAATTGCAGGAGTTCTGATTTGgtaagtcttt ... tcttaaacagGGATTACTTGTCTCCAATTGATCTCATAAGAAACTACCCTCACTTAGTTGT
EST: gi|125319744|gb|EL333829.1|EL333829
EST:     CTATATCCCTTAGTCACGTTAATTGCAGGAGTTCTGATTTG                         GGATTACTTGTCTCCAATT
genomic: CTATATCCCTTAGTCACGTTAATTGCAGGAGTTCTGATTTGgtaagtcttt ... tcttaaacagGGATTACTTGTCTCCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgacttactctcgtttacacattgggacttatcgatattcttgtcttaaacagGGATTACTTGTCTCCAATTGATCTCATAAGAAACTACCCTCACTTAGTTGTGTTGGGAACTGGTCTTGCATTTGGATTCCTTGTG
   gacttac  putative branch site (score: 2)
                                       ttcttgtctt  putative PPT
                                    atattctt  TA-rich tract