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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatacttggaagtacttagattatttttctcatgtgctctacaactgttaacttatcattttcaaaccttttatagATTGGAGTGATGATTATGACTCATGGAGATGACAAAGGCCTGGTACTCCCTCCTAAAGTCGCATCTGTGCAAGTTGTTGTGATTCCTGTTCCCTACAAAG

Basic information

species Arabidopsis thaliana
transcript AT3G62120.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G62120.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G094123_T01 (Zea mays), 3'ss of exon 8
------------------gtaaatact-tggaagtacttagattatttttctcatgtgctctacaactgtt---aacttatcattttcaaaccttttatagATTGGAGTGATGATTATGACTCATGGAGATGACAAAGGCCTGGTACTCCCTCCTAAAGTCGCATCTGTGCAAGTTGTTGTGATTCCTGTTCCCTACAAAG
                  ||  ||  | |      | ||  ||  | ||   ||     | |     ||||   ||  |||       | ||| ||   |||||||||||||| | ||||| ||||| |||||||||||| | ||| | || || || || ||  |  | || ||  |||||||||| || || || || |
ctaaaaggctatgttgatgttgatgttgtatttccagttgcatagtgttatgcacaaattatgtttatgtttgtaatatattgaacctacaccctt-gcagATTGGAGTGATGGTGATGACACATGGTGATGACAAAGGCTTAGTATTACCACCAAAGGTGGCGCCAATCCAGGTAATTGTGATTCCAGTGCCTTATAAGG

upper sequence: AT3G62120.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA19G40930.4 (Glycine max), 3'ss of exon 9
-------gtaaatacttggaagtacttagattatttttctcatgtgctctacaactgttaacttatcattttcaaaccttttatagATTGGAGTGATGATTATGACTCATGGAGATGACAAAGGCCTGGTACTCCCTCCTAAAGTCGCATCTGTGCAAGTTGTTGTGATTCCTGTTCCCTACAAAG
        ||| | |||| |  ||| |  |||       ||     ||||||| |   |  | | |   |||      ||| | ||||||| || ||| | |||  |||||| |||||||| ||  ||||||| ||||||||||| ||||| || |||||| ||||||||||||| || |||||||
gtaagctttaatttcttgaatatacattcattggaggattc-----ctctacatcatattgcatctatatttgttttttttaacagATTGGGGTCATGGTGATGGTTCATGGTGATGACAAGGGATTGGTACTACCTCCTAAAGTAGCATCAGTACAAGTTATTGTGATTCCTGTGCCTTACAAAG

upper sequence: AT3G62120.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G38340.1 (Glycine max), 3'ss of exon 9
-------gtaaatacttggaagtacttagattatttttctcatgtgctctacaactgttaacttatcattttcaaaccttttatagATTGGAGTGATGATTATGACTCATGGAGATGACAAAGGCCTGGTACTCCCTCCTAAAGTCGCATCTGTGCAAGTTGTTGTGATTCCTGTTCCCTACAAAG
        | | | |||| |  ||| |  |||       || | | |   | |  ||   | ||||  || |      ||| | |||| || || ||| | |||  |||||| |||||||| ||  ||||||| ||||||||||| ||||| || |||||  ||||||||||||| || |||||||
gtaagctttgatttcttgaatatacattcattggaggattcctctacatcata-ttgc--atttatatttctgttttttttaacagATCGGTGTCATGGTGATGGTTCATGGTGATGACAAGGGATTGGTACTACCTCCTAAAGTAGCATCAGTACAAGTCATTGTGATTCCTGTGCCTTACAAAG

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|164050754|gb|ES103519.1|ES103519
EST:     AGAAATGGTGTGGCAGAATTCTTGGGCCTACAGTACCAGGACG                         ATTGGAGTGATGATTATGACTCATGGAGATGACAAAGGCCTGGTACTCCCT
genomic: AGAAATGGTGTGGCAGAATTCTTGGGCCTACAGTACCAGGACGgtaaatactt ... ccttttatagATTGGAGTGATGATTATGACTCATGGAGATGACAAAGGCCTGGTACTCCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttttctcatgtgctctacaactgttaacttatcattttcaaaccttttatagATTGGAGTGATGATTATGACTCATGGAGATGACAAAGGCCTGGTACTCCCTCCTAAAGTCGCATCTGTGCAAGTTGTTGTGATTCCTGTTCCCTACAAAG
                        tgttaac  putative branch site (score: 2)
                                             ccttttat  putative PPT
                          ttaacttatcatttt  TA-rich tract