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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttccccatgattcttacatgtcttactacttttagctatataggtgatcatacatgtgtaatttcaattgcagGGACTTGGCACAGAATAAACTCAGTGGTGAGATACCAAGACTTATTTACTGGAATGAAGTTCTTCAGTATCT

Basic information

species Arabidopsis thaliana
transcript AT2G26330.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os06g10230.1 (Oryza sativa), 3'ss of exon 6
gtatgttccccatga-ttcttacatgtcttactacttttagctatataggtgatcatacatgtgtaatttcaattgcagGGACTTGGCACAGAATAAACTCAGTGGTGAGATACCAAGACTTATTTACTGGAATGAAGTTCTTCAGTATCT
||| ||| | |   | ||||||  | | |      |  |  |  |        |  |  |  |||  | |    |||||||||||||||||||| ||||| ||||| |||||||||||||| || || ||||| || |||||||| ||  |
gtaagttgcgcgaaacttcttatttttgtggtgtttaattaccgtgctcccagttttctaattgttgtgtgccctgcagGGACTTGGCACAGAACAAACTGAGTGGAGAGATACCAAGACTGATATATTGGAACGAGGTTCTTCAATACTT

upper sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM5G809695_T01 (Zea mays), 3'ss of exon 6
gtatgttccccatgattcttacatg--tcttactactt---ttagcta-tataggtgatcatacatg-tgtaatttcaattgcagGGACTTGGCACAGAATAAACTCAGTGGTGAGATACCAAGACTTATTTACTGGAATGAAGTTCTTCAGTATCT
||| ||| |     ||| || ||||  |||||  |  |   | | |||  || |   |  ||   |  ||| || |  | | ||||||||||||||| || ||||| | ||| |||||||| || ||||| || ||||| || |||||||| ||  |
gtaagttact----attgttgcatgattcttataaggtggatcaactagcatggtccagaatttctaatgtgatgtgcactccagGGACTTGGCACAAAACAAACTGACTGGGGAGATACCGAGGCTTATCTATTGGAACGAGGTTCTTCAATACTT

upper sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G05900.1 (Glycine max), 3'ss of exon 7
---------------gtatgttcccca------tgattcttacatgtcttactacttttagctat-ataggtgatcatacatgtgtaatttcaattgcagGGACTTGGCACAGAATAAACTCAGTGGTGAGATACCAAGACTTATTTACTGGAATGAAGTTCTTCAGTATCT
               || |  ||  ||      ||| | |   || | | |||| |  ||||||| ||     |   |           |||  || ||| ||| ||||||||||||| || || || ||||||||||||||||| || |||||||||||| | || |||||
gtaagttactttttggttttctcttcagaaggatgactttagtatctataacta-tcatagctatcattcactaaattttgaaaactggttctgttccagAGACCTGGCACAGAATAATCTTAGCGGGGAGATACCAAGACTTATATATTGGAATGAAGTTTTGCAATATCT

upper sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 6
gtatgttccccatgat-tcttacatgtcttactact--tttagctatatag-gt----gatcatacatgtgtaa--tttcaattgcagGGACTTGGCACAGAATAAACTCAGTGGTGAGATACCAAGACTTATTTACTGGAATGAAGTTCTTCAGTATCT
||| ||| ||  |     || |  |   || || ||  ||||   || ||  ||    | ||||   | |  ||    |   || ||||||  |||||||||||| | | ||||| || ||||| || ||||| ||||||||||||||| | ||||||||
gtaagtttccatttccacctcatctcctttccttctaatttaatgatgtaatgtcttgggtcatgactcttcaaagcattggttccagGGATCTGGCACAGAATAGATTGAGTGGAGAAATACCCAGGCTTATATACTGGAATGAAGTTTTGCAGTATCT

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|164165246|gb|ES060399.1|ES060399
EST:     ATAGGACCGATCCCTTCAACACTTTCACAGATTCCAAACCTGAAAATTCT                         GGACTTGGCACAGAATA
genomic: ATAGGACCGATCCCTTCAACACTTTCACAGATTCCAAACCTGAAAATTCTgtatgttccc ... tcaattgcagGGACTTGGCACAGAATA
EST: gi|124712534|gb|EH803936.1|EH803936
EST:     ATAGGACCGATCCCTTCAACACTTTCACAGATTCCAAACCTGAAAATTCT                         GGACTTGGCACAGAATAAACTCAGTGGTGAGATACCAAGACTTATT
genomic: ATAGGACCGATCCCTTCAACACTTTCACAGATTCCAAACCTGAAAATTCTgtatgttccc ... tcaattgcagGGACTTGGCACAGAATAAACTCAGTGGTGAGATACCAAGACTTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcttactacttttagctatataggtgatcatacatgtgtaatttcaattgcagGGACTTGGCACAGAATAAACTCAGTGGTGAGATACCAAGACTTATTTACTGGAATGAAGTTCTTCAGTATCT
 gtcttac  putative branch site (score: 3)
                                        taatttcaatt  TA-rich tract