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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGACTGGGAAGGCAGTTATGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatgccgtttcctaattctcaacgaggtgctctttgtgtttgcttcttgtaatcaattcttttgctcatttctcttttgcttaaacag

Basic information

species Arabidopsis thaliana
transcript AT1G68920.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G68920.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G137541_T01 (Zea mays), 5'ss of exon 4
GTGACTGGGAAGGCAGTTATGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgta-tgccg------tttcctaattctcaacgaggtgctctttgtgtttgcttcttgtaatcaattcttttgctcatttctcttttg----cttaaacag----------------------------------------------------------------------------------------
|| ||||| ||||| || ||||||||||| ||||| |||||||| || || || ||| | |||||||||||| |  |          || |||    |  |||       |   ||| |    ||| |||  |     | |  ||  |      ||    | | || |                                                                                         
GTCACTGGCAAGGCGGTGATGCTTGACGAGATCATCAACTACGTTCAGTCCCTGCAAAGACAAGTTGAGgtaataacaaacatcccccccaatatatactgagacctgaatcaagtt-gtcatttgcaatagaggaagtagaacagctagacactgagaccctgaatatgaacacagttcctctttctacaaaaccctcgttacatacatacataccgatggcaggcacatcaaaacactgaacgaatctcttgcag

upper sequence: AT1G68920.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA01G09400.1 (Glycine max), 5'ss of exon 5
GTGACTGGGAAGGCAGTTATGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatgc---cgtttcctaattctcaacgaggtgctctttgtgtttgcttcttgtaatcaattc-ttttgctcatttctcttttgcttaaacag-------
|| ||||| |||||||| ||||| || |||||||| ||||| ||||| ||||| ||||| || |||||||||||         | ||  || | |       |   |  |  ||   || |||||   |||     ||    ||    || |||     |||       
GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaagcttatctccctattgcccacatgtgattcttaagtcatgtaactgatttgccctgtatgttctggttctgcaagctcagtgcaaaa

upper sequence: AT1G68920.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA02G13860.1 (Glycine max), 5'ss of exon 6
GTGACTGGGAAGGCAGTTATGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatg----ccgtttcctaattctcaacgaggt-gctctttgtgtttgcttcttgtaatcaattctt-ttgctcatttctcttttgcttaaa--cag---
|| ||||| |||||||| ||||| || |||||||| ||||| ||||| ||||| ||||| || |||||||||||          | ||  || | |   |    ||  |  |  ||   || |||||   |||     ||   ||||   || |||||||   |||   
GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaacttatctccctatttgtccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctgcttaagttcagtac

upper sequence: AT1G68920.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA02G13860.3 (Glycine max), 5'ss of exon 5
-------------------------------GTGACTGGGAAGGCAGTTATGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatgcc----gtttcctaattctcaacgaggt-gctctttgtgtttgcttcttgtaatcaattc-ttttgctcatttctcttttgcttaaa--cag---
                               || ||||| |||||||| ||||| || |||||||| ||||| ||||| ||||| ||||| || |||||||||||          | ||  || | |   |    ||  |  |  ||   || |||||   |||     ||   ||||   || |||||||   |||   
CATTGTTTATTATTACTTTCTATGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaacttatctccctatttgtccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctgcttaagttcagtac

upper sequence: AT1G68920.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv01s0010g00740.t01 (Vitis vinifera), 5'ss of exon 5
GTGACTGGGAAGGCAGTTATGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatgccgtttcctaattctcaacgaggtgctctttgtgtttgcttcttgtaatcaattcttttg-ctcatttctcttttgcttaaacag-----------------
|| ||||| ||||| || ||||| || |||||||| ||||| || |||||||| ||||| || |||||||||||   ||    ||   || | |   | |||||| |  |  ||  | ||  ||||||  | ||  | |||| |  | | ||  | |                   
GTCACTGGCAAGGCGGTCATGCTAGATGAAATCATTAACTATGTGCAATCACTTCAACGGCAGGTTGAGgtatggtatt----aaggatctatg---ttctctttttcctccctattggttctcaattgatctggtttatttgttctatcctgcatcttaaatgtctccgaaacat

upper sequence: AT1G68920.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S68_190V6.1 (Physcomitrella patens), 5'ss of exon 3
-------------------------------GTGACTGGGAAGGCAGTTATGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatgccgtttcctaattctcaacgaggtgctctttgtgtttgcttcttgtaatcaattcttttgctcatttctcttttgcttaaacag----------------------------------------------
                               || || || |||||||| ||||||||||| ||||| ||||| || ||||| || ||||| |||||||| ||||| |  || |  ||| ||||||   ||||  |  | ||   ||| |||  |     |  ||  |  | || ||  || | ||                                                  
CCTGCAGGACCTCGTACCCGGCTGCCGCAAAGTCACCGGCAAGGCAGTCATGCTTGACGAGATCATCAACTATGTTCAATCCCTCCAACGACAAGTTGAAgtatgtctcttacccattttcaacgcactgctaatgctattccattcatgtcttaggcacccttcttgttatcgctagtgatgaattgtagtctagtattgagttgtatcgtacactttgttatcttttttacag

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|116476256|gb|EG518848.1|EG518848
EST:     TGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAG                         TTTTTATCGATGAAACTTGCAACTGTGAACCCACAAATGGACTTTAACCTT
genomic: TGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatgccgtt ... gcttaaacagTTTTTATCGATGAAACTTGCAACTGTGAACCCACAAATGGACTTTAACCTT
EST: gi|116476258|gb|EG518850.1|EG518850
EST:     TGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAG                         TTTTTATCGATGAAACTTGCAACTGTGAACCCACAAATGGACTTTAACCTT
genomic: TGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatgccgtt ... gcttaaacagTTTTTATCGATGAAACTTGCAACTGTGAACCCACAAATGGACTTTAACCTT