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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtttcgtttctggatttgattgatgattcttcgatgaaattggtgtaacatcttatgtttgattttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACGCAAAAGGTCTTTCACTTTCTCAATTTCGTTGTTAATGGAG

Basic information

species Arabidopsis thaliana
transcript AT2G02180.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA05G26630.1 (Glycine max), 3'ss of exon 1
-----------------------------gtacgtttcgtttctggatttgatt--gatgattcttcgat-gaaattggtgtaacatcttatgtttgattttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACGCAAAAGGTCTTTCACTTTCTCAATTTCGTTGTTAATGGAG
                              | |  |||  ||  || ||   ||   || | | ||  || || | |  ||  |  | | || || |   | | ||||| ||||| | ||| |||||||||||||||| || |||||||||||||| ||||| |||||||||||||||||||||||| |||| ||||| |
gtacgacgtcgtttctgccagatttctatttccacttccgttagggtttcctttccaattactatttaattgataattatgataattgtaatatt-gtgatggctttagGTTCAATTAGTGCGAATACAATTGAGAGTGCCGGAATATGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTCATTGTGAATGGGG

upper sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA08G09640.1 (Glycine max), 3'ss of exon 1
-----------------gtacgtttcgtttctggatttgattgatgattcttcgatgaaattggtgtaacatcttatgtttgattttggttt-agATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACGCAAAAGGTCTTTCACTTTCTCAATTTCGTTGTTAATGGAG
                   |  ||||  ||     ||   ||   | ||| |     || |   | | | || ||   |   ||  || ||| || ||||| | ||  ||||||||| |||||| || || ||||||||||| ||||| |||||||||||||||||||||||| |||| ||||| |
gtacgacgccgtttccgccagatttctatttccacttccgttagggtttcctttcc-aattatttatgatatttttaataatatgatgattttagGTTCAATTAGTTCGAATACAATGGAGAGTGCCGGAGTATGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTCATTGTGAATGGGG

upper sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 1
-----------------gtacgtttcgtttctggatttgattgatgattcttcgatgaaattggtgtaacatcttatgtttgattttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACGCAAAAGGTCTTTCACTTTCTCAATTTCGTTGTTAATGGAG
                  |   || |   |  || ||| |||  || || ||||||   |||  | ||| || || | |||||||    ||||| ||||||| |   | ||||| |||||||| || || || |||||||| ||||| |||||||||||||||||||||||  | || ||||| |
gtatcgtcgcgcactcttttaattccaaattagggttttatttttgtttattcgattttatt--tataa-attttttatttgattgaattttagGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG

upper sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 1
----------------------gtacgtttcgtttctggatttgattgatgattcttcgatgaaattggtgta-acatcttatgttt-gattttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACGCAAAAGGTCTTTCACTTTCTCAATTTCGTTGTTAATGGAG
                       |   || |   |  ||  || |||  || || |||| |    ||  | || | || || | ||| ||||    ||||| ||||||| |   | ||||| |||||||| || || || |||||||| ||||| |||||||||||||||||||||||  | || ||||| |
gtatcgtcgcgtggcgtactctttcaattccaaattagggctttatttttgtttattcgtttttttttttttataaattttttattttgattgaactttagGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG

upper sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv01s0010g01740.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------gtacgtttcgtttctggatttgattgatgattcttcgatgaaattggtgtaacatcttatgtttgattttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACGCAAAAGGTCTTTCACTTTCTCAATTTCGTTGTTAATGGAG
                        ||             |||||  ||| |  || ||   | || ||    |   || |||| | | | |||  |  || ||||||| ||  | |||||||||||||| || || ||||||||||| ||||| ||||| || ||||||||||||||| | || ||||| |
tttctttatgaatcttcttttccataaacgaaacagagtgatttttttgtttttttttttttaaatttctaatctgatattatttcttaattttttaaagGTTCAACTGGTTCGGATACAATTGAGAGTCCCAGAGTATGGTTGGACCACGCAGAAGGTGTTCCACTTTCTCAATTTCCTGGTGAATGGGG

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|19877197|gb|AU238028.1|AU238028
EST:     TCTTCCATGTTCTCGCTGTTCTCTACGGAATCGTTTCCCTCGTTGCTGTG                         ATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACG
genomic: TCTTCCATGTTCTCGCTGTTCTCTACGGAATCGTTTCCCTCGTTGCTGTGgtacgtttcg ... tttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACG
EST: gi|125262309|gb|EL276394.1|EL276394
EST:     TCTTCCATGTTCTCGCTGTTCTCTACGGAATCGTTTCCCTCGTTGCTGTG                         ATTCAACTTGTGAGAATACAATTGAGAGTTCCCGAATATGGTTGG
genomic: TCTTCCATGTTCTCGCTGTTCTCTACGGAATCGTTTCCCTCGTTGCTGTGgtacgtttcg ... tttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGG
EST: gi|125049935|gb|EL122204.1|EL122204
EST:     CGTTTCCCTCGTTGCTGTG                         ATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACG
genomic: CGTTTCCCTCGTTGCTGTGgtacgtttcg ... tttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACG
EST: gi|124780629|gb|EH870572.1|EH870572
EST:     TCTTCCATGTTCTTGCTGTTCTCTACGGAATCGTTTCCCTCGTTGCTGTG                         ATTACAACTTGTGAGAATACAATTGAGAGT
genomic: TCTTCCATGTTCTCGCTGTTCTCTACGGAATCGTTTCCCTCGTTGCTGTGgtacgtttcg ... tttggtttagATT-CAACTTGTGAGAATACAATTGAGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgatgattcttcgatgaaattggtgtaacatcttatgtttgattttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACGCAAAAGGTCTTTCACTTTCTCAATTTCGTTGTTAATGGAG
                                  ttatgtttgatttt  TA-rich tract