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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGGTCAAGCTCCTGCTCGTCAAGCTGCTTTAGGTGCAGGAATCCCTAACTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAGgtgagaactttggaacatttgcgctctgcattttttagacttttgatttgatgcttttgacaatgtttttctggtttgtttggtggtttttcag

Basic information

species Arabidopsis thaliana
transcript AT5G48230.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G48230.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os09g07830.1 (Oryza sativa), 5'ss of exon 4
TTGGGTCAAGCTCCTGCTCGTCAAGCTGCTTTAGGTGCAGGAATCCCTAACTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAGgtgagaactt-tggaacatttgcgctctgcattttttagacttttgatttgatgcttttgacaatgtttttctggtttgtttggtggtttttcag
||||| |||||||||||  | |||||||||||||||||||| || || ||| | ||| | || |   |||||||||| ||||| ||||| |||||||||||| | |  |  ||   ||    |  |||  |  || |   |     |||  ||     |||  |||   || |  ||| |||  |  || | |||
TTGGGGCAAGCTCCTGCAAGACAAGCTGCTTTAGGTGCAGGGATACCAAACACAGTTGTTTGCAGCGCAGTTAACAAAGTTTGCGCATCTGGCATGAAAGgttacagttcatgaggcagc--ctttctataaattctgttcaagaaattatatttacctgatcatgggcttgtt-tttatttcct--ttctgcag

upper sequence: AT5G48230.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM5G866758_T02 (Zea mays), 5'ss of exon 4
TTGGGTCAAGCTCCTGCTCGTCAAGCTGCTTTAGGTGCAGGAATCCCTAACTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAGgtgagaact---ttggaacatttgcgctc-tgcatttt--ttagacttt--tgatttgatgcttttgacaatgtttttctggtttgtttggtggtttttcag
||||| |||||||||||  | ||||||||| | ||||| || || || ||||||||| | || || || |||||||| || |||||||| ||||||||||||  |||     ||      | ||  ||  || | | |  | ||| ||    ||  |||    ||     |   |  ||| ||||   |      | | |||
TTGGGGCAAGCTCCTGCAAGGCAAGCTGCTCTGGGTGCCGGGATACCAAACTCTGTTGTTTGCACCACTGTTAACAAAGTCTGTGCATCTGGCATGAAAGgtttgaatcgaatttatctgtctgtccttgtgtactctgctcagagttcacagaagtgagagattacctgaccatgctcttgttttcctttcctatatgcag
















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|116435447|gb|EG478039.1|EG478039
EST:     CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAG                         CGGTAATGATTGCTGCTCAAAGTATCCAGTTAGGGATCAATGATGTAGTTG
genomic: CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAGgtgagaactt ... ggtttttcagCGGTAATGATTGCTGCTCAAAGTATCCAGTTAGGGATCAATGATGTAGTTG
EST: gi|116435458|gb|EG478050.1|EG478050
EST:     CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAG                         CGGTAATGATTGCTGCTCAAAGTATCCAGTTAGGGATCAATGATGTAGTTG
genomic: CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAGgtgagaactt ... ggtttttcagCGGTAATGATTGCTGCTCAAAGTATCCAGTTAGGGATCAATGATGTAGTTG
EST: gi|164031831|gb|ES018068.1|ES018068
EST:     CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAG                         CGGTAATGATTGCTGCTCAAAGT
genomic: CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAGgtgagaactt ... ggtttttcagCGGTAATGATTGCTGCTCAAAGT
EST: gi|116435448|gb|EG478040.1|EG478040
EST:     CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAG                         CGGTAATGATTGCTGCTCAAAGTATCCAGTTAGGGATCAATGATGTAGTTG
genomic: CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAGgtgagaactt ... ggtttttcagCGGTAATGATTGCTGCTCAAAGTATCCAGTTAGGGATCAATGATGTAGTTG
EST: gi|116435459|gb|EG478051.1|EG478051
EST:     CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAG                         CGGTAATGATTGCTGCTCAAAGTATCCAGTTAGGGATCAATGATGTAGTTG
genomic: CTCTGTTATCTGTACTACAGTTAACAAGGTTTGTGCATCAGGCATGAAAGgtgagaactt ... ggtttttcagCGGTAATGATTGCTGCTCAAAGTATCCAGTTAGGGATCAATGATGTAGTTG