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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaacagaatttttctttgaaatgtgtcaatttacttagcctgttacttaaacgaacccttttaaccgttcaccactttgggcatcaaag

Basic information

species Arabidopsis thaliana
transcript AT2G17800.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G17800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaacagaatttttctttgaaatg-tgtcaatttacttagcctgt--tacttaaacg-----aacccttttaacc--gttcaccactttg----ggcatcaaag----------------------------------------------------
||||||| |||||||| ||||||||  | ||||| ||||| ||||| || || |||||||||||||||     | |  |  ||    ||  |||    |    |||   ||  ||| ||||||      ||||  | ||    ||  || ||| ||    ||  |                                                         
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA01G36880.3 (Glycine max), 5'ss of exon 6
ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaacagaatttttctttgaaatgtgtcaatttacttagcctgttacttaaacgaacccttttaaccgttcaccactttgggcatcaaag
| ||||||||||| || ||||||| ||||||||| ||||| || ||||| ||||| || |||||||| |  |   || || |  |   | ||  |  ||  ||||    ||| | ||   || |   | |   || ||   | |||          
ACCTTCGGGATGATAAGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagta---ttgttttgggtgctctggaatcttgtttagttatttaataaattaaatc---tgacttgtgcattcccttgaag-------

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA16G23340.1 (Glycine max), 5'ss of exon 5
ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaaca--gaatttttctttgaaatgtgtcaatttacttagcctgttacttaaacgaacccttttaaccgttcaccactttgggcatcaaag------------------
| ||||| ||||| || ||||||||||| ||||| ||||| |||||||| ||||| || | |||||||       | ||||| |||    ||||    | || ||    |     |  |  | |  ||| |||           |||     | |||                   
ACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtatttttttattttttattttttgtgtgattctctagttgttttacatttctagtgcattcttgtaattaactttagtttttaatctaaaatttgcttatcttcttaaag

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA11G08380.1 (Glycine max), 5'ss of exon 6
ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaacagaatttttctttgaaatgtgtcaatttacttagcctgttacttaaacgaacccttttaaccgttcac-cactttgggcatcaaag
| ||||||||||| || ||||||| ||| ||||| ||||| || ||||| ||||| || |||||||| || |   || ||    |   | ||  |  ||  ||||     || | ||   || |   | |   || ||  | ||||  |        
ACCTTCGGGATGATAAGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaata---ttgtttcgggtgctctggaaccttgtttagttatgtaataaattaaatc---tgacttgtgcattccctttaag--------

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 5'ss of exon 6
ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaa-----------cagaatttttctttgaaatg--tgtcaatttac--ttagcctgttacttaaacgaac----ccttttaaccgttcaccactttgggc--atcaaag-----------
|||||||||| ||||| ||||||||||| ||||| ||||| ||||| || ||  || | |||||||||||           || |  || ||   ||  |     | ||||| |  ||||  | ||    |||  ||      |||||     || |    ||||     ||  | |           
ATCTTCGGGAAGACAAGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatgatgtgtcaaacattatcacagatttaatccttaatttgcatttagaattttttgcaaaataatattttctttttttgttttatttatttgtatttattcatgtttcatccaag

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|124928694|gb|EL006317.1|EL006317
EST:     GGCGCTGTACCAATTACTACTGCTCAG                         GGAGAGGAACTGAAGAAACTAATTGGAGCTCCCGCATACATCGAGTGCAGT
genomic: GGCGCTGTACCAATTACTACTGCTCAGgtaaacagaa ... ggcatcaaagGGAGAGGAACTGAAGAAACTAATTGGAGCTCCCGCATACATCGAGTGCAGT
EST: gi|125051742|gb|EL123831.1|EL123831
EST:     CGCTGTACCAATTACTACTGCTCAG                         GGAGAGGAACTGAAGAAACTAATTGGAGCTCCCGCATACATCGAGTGCAGT
genomic: CGCTGTACCAATTACTACTGCTCAGgtaaacagaa ... ggcatcaaagGGAGAGGAACTGAAGAAACTAATTGGAGCTCCCGCATACATCGAGTGCAGT