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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttgaatcactttgtgtatagtttgtatatatgtacagtctagtatgtgtttgactggggttttacttctgccatcgtatttaactgtacttgtttttttatatttaagtgacagcaataatgcttgttttgaaagctaggctgccttttgtgacacaattgctatatttcattggcacagAATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGACTTTGGTCTGTCAGATTTTATTAGACCAG

Basic information

species Zea mays
transcript GRMZM2G115518_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G115518_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g50030.1 (Oryza sativa), 3'ss of exon 4
gtatgcttgaatcactttgtgtatagtttgtatatatgtacagtctagtatgtgtttga--ctggggttttacttctgc-catcgtatttaactgtacttgtttttttatatttaagtgacagcaataatgcttgttttgaaagctaggctgccttttgtgacacaattgctatatttcattggcacagAATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGACTTTGGTCTGTCAGATTTTATTAGACCAG
                                               || ||  ||  |  || ||   | | || ||   |   ||  |   | ||| | |    | | ||||          ||| || |||||   ||| ||||||||   |||| ||||| | || ||||   || || |  |||||||| || |||||||| || |||||||  ||||| |||||||||||||| |||||||| || ||||| ||||||||||
-----------------------------------------------gtgtgctttgaaatcttggaactaatttatgtgtagtttacattcgtatacgtatgcagtcacatttgta-------aattatacttgta--gaatgctaggctat-ttttatgacatagtt-ctat---tcttttgtccagAATTTCCTTTTCACAACCAGGGATGAAAATGCTCCCATGAAGTTGATTGATTTTGGTCTCTCTGATTTCATTAGACCAG
















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|31354119|gb|CD438476.1|CD438476
EST:     TGGCCTTCTGTCATCTTCAGGGAGTAGTGCATCGTGATTGGAAGCCAGAG                         AATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGAC
genomic: TGGCCTTCTGTCATCTTCAGGGAGTAGTGCATCGTGATTTGAAGCCAGAGgtatgcttga ... attggcacagAATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGAC
EST: gi|31356504|gb|CD440861.1|CD440861
EST:     TGGCCTTCTGTCATCTTCAGGGAGTAGTGCATCGTGATTGGAAGCCAGAG                         AATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGAC
genomic: TGGCCTTCTGTCATCTTCAGGGAGTAGTGCATCGTGATTTGAAGCCAGAGgtatgcttga ... attggcacagAATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGAC
EST: gi|211371493|gb|FL287192.1|FL287192
EST:     TGGCCTTCTGTCATCTTCAGGGAGTAGTGCATCGTGATTTGAAGCCAGAG                         AATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGAC
genomic: TGGCCTTCTGTCATCTTCAGGGAGTAGTGCATCGTGATTTGAAGCCAGAGgtatgcttga ... attggcacagAATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGAC
EST: gi|6760508|gb|AW324597.1|AW324597
EST:     GGCCTTCTGTCATTCTTCAGGGAGTAGTGCATCGTGATTTGAAGCCAGAG                         AATTTTCTCTTCACAAC
genomic: GGCCTTCTGTCAT-CTTCAGGGAGTAGTGCATCGTGATTTGAAGCCAGAGgtatgcttga ... attggcacagAATTTTCTCTTCACAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttgaaagctaggctgccttttgtgacacaattgctatatttcattggcacagAATTTTCTCTTCACAACAAGAGATGAAAGCGCTCCTATGAAGTTGATTGACTTTGGTCTGTCAGATTTTATTAGACCAG
                                         tttcatt  CT-rich tract
                                     tatatttcatt  TA-rich tract