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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttttgtttccattgctggattcattttgaaattcaacatcatcagatagtttattccgtctgacttgcttctagtcctctaccttttcatttcttattgatgactgtattttatatgtgcgagacagGTTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATGATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACAT

Basic information

species Arabidopsis thaliana
transcript AT1G16300.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G16300.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 4
gtattttttgtttccattgctggattcattttgaaattcaacat-catcagatagttt-attccgtctgacttgcttctagtcctctaccttttcatttcttattgatgactgtattttatatgtgcgagacagGTTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATGATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACAT
                                    |  || || ||||| || || | | | || |         | |||  || |     |   | |  |  | ||| || || ||  ||    | |  |||||||||||||||||||||| |||||  | ||  | ||||||| |||||||||||| || || ||||||||||| ||||||||  | |||||||| |||||
--------------------------------atggtctaatattcatcatattgtctcagtgcgaccctgcaaaatatagctctgtggtgatcattgtgatgataatgtct-tagttgttaaactc-atgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT
















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|19875542|gb|AU236373.1|AU236373
EST:     GGTCAAGGAGCAGTGGAAAGACAAAGGTTGGGATCAACG                         GTTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATG
genomic: GGTCAAGGAGCAGTGGAAAGACAAAGGTTGGGATCAACGgtattttttg ... tgcgagacagGTTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtcctctaccttttcatttcttattgatgactgtattttatatgtgcgagacagGTTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATGATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACAT
                      tattgat  putative branch site (score: 3)
           ttttcatttcttatt  TA-rich tract