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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTGGAGGTGGCGGCGGAGGATCTGAAAGACCAAGAACTGCTCCTCCAGATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaagaccttcatgtgtcgataacttgttactaaacccatttctttgctactgtgtttgctctctgcttagctattggatctagctcattttgcttcatttttacttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G49970.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G49970.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G40390.1 (Glycine max), 5'ss of exon 3
-AGGTGGAGGTGGCGGCGGAGGATCTGAAAGACCAAGAACTGCTCCTCCAGATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaag----accttcatgtgtc--gataacttgttactaaacccatttctttgctactgtgtttgctctctgcttagcta--ttggatctagctcattttgcttcatttttacttgcag
 | ||   |  || ||  | ||| ||| ||| |||| ||||||||| |||||| ||||||||||||| ||||||||||| |||||||| || || ||||| |||||     || | |||  ||  | |  |    |||||    |      | | ||   | | |||| |||  |   | |   | ||| |  || |||  |  |   |  |   | |||
TATGTATCGA-GGAGGTAGGGGAACTGGAAGGCCAAAAACTGCTCCACCAGATCTGCCTTCTTTGCTCTTGGATGCTCGAATATGCTATCTGGGTATGCCGgtaagcatcgccctgatgactcatgttccccccctactagcttctgcatataggtatc-tatctgctatcttttatcccaatcttgatgttcctaattacgtctttatgatttgtacag

upper sequence: AT1G49970.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G26950.1 (Glycine max), 5'ss of exon 4
-AGGTGGAGGTGGCGGCGGAGGATCTGAAAGACCAAGAACTGCTCCTCCAGATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaag----accttcatgtgtcgataacttgttactaaacccatttctttgctactgtgtttgctctctgcttagctattggatctag----ctcattttgcttcatttttacttgcag--
 | ||   |  || ||  | ||| | | ||| |||| ||||||||| |||||| ||||||||||||| ||||||||||| |||||||| || || ||||| |||||    |||   |||  ||      || |  |   ||    |||| |      || | | |   ||   |         || | |      | | ||   || || | | ||| |   
TATGTATCGA-GGAGGTAGGGGAACCGGAAGGCCAAAAACTGCTCCACCAGATCTGCCTTCTTTGCTCTTGGATGCTCGAATATGCTATCTGGGTATGCCGgtaagcatcaccccaatgactcat--gtttttcccctgactagcttctgtatataggtatctacctgctatcttttatcccaattttgatgttccttattaagtctttatgatttgtacag

upper sequence: AT1G49970.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv03s0091g00700.t01 (Vitis vinifera), 5'ss of exon 3
-AGGTGGAGGTGGCGGCGGAGGATCTGAAAGACCAAGAACTGCTCCTCCAGATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaag--accttcatgtgtcgataacttgttactaaacccatttctttgctactgtgtttgctctctg--cttagctattggatctagctcattttgcttcatttttacttgcag----------------
 | ||   | ||| ||| ||||||||| |||||| |||||||||||||| |||||||| |||||||| || |||||||| || ||||| || ||||||||||||||  |   ||     | | | |     | ||      |||   | |  |||    |   |||||   | ||    || ||| |   | | ||  ||| || |||  || |                  
CATGTATCG-TGGAGGCAGAGGATCTGGAAGACCCAGAACTGCTCCTCCTGATTTGCCATCTTTGCTCTTAGATGCTCGGATTTGCTATCTGGGCATGCCAgtaagtcattctctctctttgtttatcctgtgctctgggtattggctaggaacttccctatttctcttgccatattccttcgatttga-ttagttgccttgatattttttttcccctctaattttctgcag

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|124829544|gb|EH914135.1|EH914135
EST:     ATTTGCCTTCCTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCA                         ATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAAT
genomic: ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaagacctt ... ttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAAT
EST: gi|47831292|gb|CK120976.1|CK120976
EST:     ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCA                         ATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGAC
genomic: ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaagacctt ... ttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGAC
EST: gi|47829642|gb|CK119326.1|CK119326
EST:     ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCA                         ATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGAC
genomic: ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaagacctt ... ttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGAC