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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggatttcattgattagtgattactattgaatctagctcgtagcctttgatattgataatatcctacagcgaaatcaagtcatatacatagttcctgctgaaactactaaacgcattatttgtatctgtttcttgatcccctgcatgttttaatggtatctctgcagGACATAAAATTGGCAGTTCATGCACATCCAACACTCTCTGAGGTCCTCGACGAACTGTTCAAAGCAGCCAAG

Basic information

species Arabidopsis thaliana
transcript AT3G16950.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 13
gtaggatttcattgattagtgattactattgaatctagctcgtagcctttgatattgataatatcctacagcgaaatcaagtcatatacatagttcctgctgaaactactaaacgcattatttgtatctgtttcttgatcccctgcatgttttaatggtatctctgcagGACATAAAATTGGCAGTTCATGCACATCCAACACTCTCTGAGGTCCTCGACGAACTGTTCAAAGCAGCCAAG
                                                        |  | |||  |      |  |    |||  |   | ||   || | |  ||   |   | || | ||| || ||   | ||||| |   ||              |   ||||||||| || || || ||||||||||| |||||| | || ||||| || |||||||| || ||||||||||||
--------------------------------------------------------gtgagtataatgatattatttttcttcacttggttcgtctttgtt-agcctttcagcagtataacttgaatttga--catgatcactccca--------------ccacgcagGACATCAAGTTTGCTGTTCATGCACACCCAACATTGTCCGAGGTGCTGGACGAACTCTTTAAAGCAGCCAAG

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 13
gtaggatttcattgattagtgattactattgaatctagctcgtagcctttgatattgataatatcctacagcgaaatcaagtcatatacatagttcctgctgaaactactaaacgcattatttgtatctgtttcttgatcccctgcatgttttaatggtatctctgcagGACATAAAATTGGCAGTTCATGCACATCCAACACTCTCTGAGGTCCTCGACGAACTGTTCAAAGCAGCCAAG
                                                |   | | | | |||  |||      | | |      || |||  ||  ||  ||  ||   | || | |   | | |  |   |||||| ||  | |||  |    |  | | | |||||||||| || || || ||||| ||||| || ||| | ||||||||||| || ||||| |||||||||||||||
-----------------------------------------------gtgagtgtcgctgataatctattttttattgag----cattcatctttgttg--gattctgtcatactcgtagctagcagtt-catcttgaacctgtacataatc-gtttctgtatttgcagGACATCAAGTTTGCTGTTCACGCACACCCTACATTGTCTGAGGTCCTGGATGAACTCTTCAAAGCAGCCAAG

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 13
gtaggatttcattgattagtgattactattgaatctagctcgtagcctttgatattgataatatcctacagcgaaatcaagtcatatacatagttcctgctgaaactactaaacgcattatttgtatctgtttcttgatcccctgcatgttttaatggtatctctgcagGACATAAAATTGGCAGTTCATGCACATCCAACACTCTCTGAGGTCCTCGACGAACTGTTCAAAGCAGCCAAG
                  |  ||  |  | | | || |   | |    |   | | | | |||  |||      | | |      || |||  ||  ||  ||  ||   | || | |   | | |  |   |||||| ||  | |||  |    |  | | | |||||||||| || || || ||||| ||||| || ||| | ||||||||||| || ||||| |||||||||||||||
----------------atgccatcgccctaggaactcgtgtgcaag--tgagtgtcgctgataatctattttttattgag----cattcatctttgttg--gattctgtcatactcgtagctagcagtt-catcttgaacctgtacataatc-gtttctgtatttgcagGACATCAAGTTTGCTGTTCACGCACACCCTACATTGTCTGAGGTCCTGGATGAACTCTTCAAAGCAGCCAAG

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 13
gtaggatttcattgattagtgattactattgaatctagctcgtagcctttgatattgataatatcctacagcgaaatcaagtcatatacatagttcctgctgaaactactaaacgcattatttgtatctgtttcttgatcccctgcatgttttaatggtatctctgcagGACATAAAATTGGCAGTTCATGCACATCCAACACTCTCTGAGGTCCTCGACGAACTGTTCAAAGCAGCCAAG
                                         |||   |||  ||   | | |    |  |  |  ||  |||  ||   ||| |     |  |  || |   || | |||||| |     ||  ||| |    | ||   |||  ||||| |  |||||||||||||||| ||||||||||||||||||||  | || ||||| || || ||||| |||||| |||| |||
-----------------------------------------gtaaatttttctacc-acatttatgtgtattggcatttagt--tactaataatagtcacaaagtcttc---actc-ttatttatcctgcttgtttggtaaatttcaccgttttgtggta-caatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 13
gtaggatttcattgattagtgattactattgaatctagctcgtagcctttgatattgataatat-cctacagc-gaaatcaagtcatatacatagttcctgctgaaactactaaacgcattatttgtatctgtttcttgatcccctgcatgttttaatggtatctctgcagGACATAAAATTGGCAGTTCATGCACATCCAACACTCTCTGAGGTCCTCGACGAACTGTTCAAAGCAGCCAAG
                                         |||   |||  ||       |||   | || | |  ||  ||| ||  | |  | ||      ||| |  |  ||   |||||| |      |  ||| |    | ||   |||  ||||| |  |||||||||||||||| || |||||||||||||||||  | || ||||| || || ||||| |||||| |||| |||
-----------------------------------------gtaagtttttctaccacatttatgtgtgcacctggcatttagttattaataatggtctc----aaagtctttcac-tgttatttatcctgcctgtttggtaaatttcaccgttttgtggta-caatgcagGACATAAAATTTGCCGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG

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|164010224|gb|ES131104.1|ES131104
EST:     ACCTTATCCATGAAGCTTCTAATGCGATTGCTCTAGGAACGCGTATTCAG                         GACATAAA-TTGGCAGTTCATGC
genomic: ACCTTATCCATGAAGCTTCTAATGCGATTGCTCTAGGAACGCGTATTCAGgtaggatttc ... atctctgcagGACATAAAATTGGCAGTTCATGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattatttgtatctgtttcttgatcccctgcatgttttaatggtatctctgcagGACATAAAATTGGCAGTTCATGCACATCCAACACTCTCTGAGGTCCTCGACGAACTGTTCAAAGCAGCCAAG
                                   ttttaat  putative branch site (score: 3)
                                            tatctct  putative PPT
                                atgttttaat  TA-rich tract