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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGATTACCCTGAGAAACCTCCGACTGTTCGGTTCCATTCGCGTATCAACATGA

Basic information

species Arabidopsis thaliana
transcript AT2G36060.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G36060.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G027378_T01 (Zea mays), 3'ss of exon 2
gttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctg-actggtaattttgtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGATTACCCTGAGAAACCTCCGACTGTTCGGTTCCATTCGCGTATCAACATGA
                  | | |     | || | ||  | ||  |     ||||| | | |  |     ||    ||    | | || || ||  |  |  |     | || | ||||| |||||||||||||||||||| || || ||| ||||| | || ||||||||||| || || ||||| || ||  ||||  | ||||| ||  | ||||||||||
------------------tctgtaggtcttctct-aacaacagcgca----gtcttttccatagagttacttctcttggctatctaatttgtttccacgtccaacaacatttctctttgt-cagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAAGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA19G38450.1 (Glycine max), 3'ss of exon 2
gttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGATTACCCTGAGAAACCTCCGACTGTTCGGTTCCATTCGCGTATCAACATGA
                    |  || |||  |    || ||     | | | | |   || || |||    |   | | ||||   | ||    | ||    ||  |  | || ||    |||||||||||||| ||  | |||||||| |||||||| || ||||| ||||| |||||||| || || ||||  || ||||| ||||| || ||||| ||||
--------------------ttatctctt-ttccagataatgtatttgtatttttatatcctgcatgaa--tatcaggctatttgcaggttcagtaattgtgctttttctgtttttctaccagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGACTACCCTGAAAAGCCCCCGAGCGTCCGGTTTCATTCACGGATCAATATGA

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0080g01080.t01 (Vitis vinifera), 3'ss of exon 2
gttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttct-tcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGATTACCCTGAGAAACCTCCGACTGTTCGGTTCCATTCGCGTATCAACATGA
                         |  |  | ||  ||||||    ||   || | | || || ||  |         | ||   ||| | || |    | |||  |    ||  || | ||| |||||||||| ||||| ||||||||  ||||||| || ||||| |||||||| || ||||| ||||| | ||| ||||||||||| || ||||||||||
------------------------aagattttgtgtttgatagcttattccatcgtgtatcatgtattctcacatctatacatacagattttatgttcattaactattttaattactttttcagTCTGTACATGAAGGTCGCATTTATCAACTGAAGCTTTTTTGTGATAAAGATTATCCGGAGAAGCCTCCTAGTGTACGGTTCCATTCACGCATCAACATGA

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|124956187|gb|EL031136.1|EL031136
EST:     GTCCTCACAACGTA                         ACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: GTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|125187500|gb|EL202454.1|EL202454
EST:     GGTCCTCACAACGTA                         ACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: GGTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|86078812|gb|DR374569.1|DR374569
EST:     MCATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAAC---                         ACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|116466784|gb|EG509376.1|EG509376
EST:     ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAAC--A                         -CTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|116467250|gb|EG509842.1|EG509842
EST:     ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTA                         ACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|124955522|gb|EL030529.1|EL030529
EST:     CACTATCATCGGTCCTTCACAACGTA                         ACTGTACATGAGGGTCGGATTTTATCAGTTGAAGCTCTTCTGTGACAAAGA
genomic: CACTATCATCGGTCC-TCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGA-TTTATCAGTTGAAGCTCTTCTGTGACAAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGATTACCCTGAGAAACCTCCGACTGTTCGGTTCCATTCGCGTATCAACATGA
                            atctgac  putative branch site (score: 3)
                                         ttttgttt  putative PPT
                                      taattttgttt  TA-rich tract