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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaaaggaatggcattcactgtgttaatgtcctataacgaagtagtgtcattttgtgattactaatatcatagcatttttctctcctaatttgcccacagGGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAACTCCCGTATACATATTATTCCCTTCCGTTCTGCAAGCCAGATACCATAG

Basic information

species Zea mays
transcript GRMZM2G006117_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006117_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os09g38530.1 (Oryza sativa), 3'ss of exon 1
gcaaaggaatggcattcactgtgtt-aatgtcctataacgaagtagtgtcat-tttgtgattactaatatcatagcatttttctctcctaatttgcccacagGGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAACTCCCGTATACATATTATTCCCTTCCGTTCTGCAAGCCAGATACCATAG
 ||||  ||||  |            |||    ||   |    ||   |  | ||||||   |  | |  | |   | ||  || ||||  |||  | |||||||||| | ||||| ||||||||||||||| |||||||  | || |||||||| || ||| ||||||| |||||||| |||||||||||||| || || |
-caaataaatgttacctttaacaaggaatagtttagggcatcataacattttatttgtggccaggatttcccttataattgcctttcctg-tttatctacagGGTGATTCACTTCCCGTGAAGGTGAATAAGCTGACATCAGTAAAAACTCAACTACCCTATGCATATTACTCCCTTCCTTTCTGCAAGCCAGAAACTATCG
















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|149106813|gb|EE188710.2|EE188710
EST:     CGGCCGCCGGGTTCTACCTCCCCGGCGTTGCCCCGAGCGATTTCGCGAAG                         GGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAA
genomic: CGGCCGCCGGGTTCTACCTCCCCGGCGTTGCCCCGAGCGATTTCGCGAAGgtttgttcgt ... ttgcccacagGGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAA
EST: gi|211347263|gb|FL106776.1|FL106776
EST:     CGG-CGCCGGGTTCTACCTCCCCGGCGTTGCCCCGAGCGATTTCGCGAAG                         GGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAA
genomic: CGGCCGCCGGGTTCTACCTCCCCGGCGTTGCCCCGAGCGATTTCGCGAAGgtttgttcgt ... ttgcccacagGGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAA
EST: gi|76018555|gb|DT945725.1|DT945725
EST:     CGGCCGCCGGGTTCTACCTCCCCGGCGTTGCCCCGAGCGATTTCGCGAAG                         GGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAA
genomic: CGGCCGCCGGGTTCTACCTCCCCGGCGTTGCCCCGAGCGATTTCGCGAAGgtttgttcgt ... ttgcccacagGGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcattttgtgattactaatatcatagcatttttctctcctaatttgcccacagGGTGATCCGCTTCCAGTGAAGGTGAATAAGTTGACATCTATCAAGACTCAACTCCCGTATACATATTATTCCCTTCCGTTCTGCAAGCCAGATACCATAG
                              tttttctctcctaatt  CT-rich tract
            attactaatatcata  TA-rich tract