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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgttttaggccaaggtctgcttagcctgcctaagtacccacaaattcacatgccttgttgtgtctctgttcgagtcaccatgaaaattgtttttacagGTGGACAAGGCAAAACACCAATATGAAAATCTTTTACTGTCATCAGCATGTGAAACTGTTTTAGAGATTGGTGATCTTGGAAACTTGTACATCGATGAGC

Basic information

species Zea mays
transcript GRMZM2G029055_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029055_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g11120.1 (Oryza sativa), 3'ss of exon 9
gatgttttaggccaaggtctgcttagcctgcctaagtacccacaaattcacatgccttgttgtgtctctgttcgagtcaccatg---aaaattgtttttacagGTGGACAAGGCAAAACACCAATATGAAAATCTTTTACTGTCATCAGCATGTGAAACTGTTTTAGAGATTGGTGATCTTGGAAACTTGTACATCGATGAGC
    ||| ||  ||    ||||    | |       || ||  |  ||  |||||  |||||||| | |||| |  |    |||   ||| || ||| | |||||||||||||||||  | || | |||||||||||| ||||||||||||||||||||| || | ||||||||| |  | |||||||||||||| |||||||
---atttcagaacaccacctgccatccatttactcttatccggatctttgcatgctctgttgtgtatatgttggtttgcagatgtataaacttttttatgcagGTGGACAAGGCAAAGGATCAGTTTGAAAATCTTTTGCTGTCATCAGCATGTGAAACTCTTATGGAGATTGGTAACTTAGGAAACTTGTACATTGATGAGC

upper sequence: GRMZM2G029055_T02 (Zea mays), 3'ss of exon 9
lower sequence: AT3G55400.1 (Arabidopsis thaliana), 3'ss of exon 8
gatgttttaggccaaggtctgcttagcctgccta-agtacccacaaattcacatg-ccttgttgtgtctctgttcgagtc---accatgaaaattgtttttaca-gGTGGACAAGGCAAAACACCAATATGAAAATCTTTTACTGTCATCAGCATGTGAAACTGTTTTAGAGATTGGTGATCTTGGAAACTTGTACATCGATGAGC
             |||||     |  | |  ||| |  ||   |   |  | ||| | || ||  |||  | ||  |      ||      | |   | ||| | ||| || ||||| |      | ||||||||||| | ||| |||||||| |||||| ||||||||||||||||  ||   |||||    ||||| ||| | |
-----------gtaaggttctaatgacatctctacaccactttcgtctcaaaatggctttattaggtcaatctttcatctcaaactgcaccattctctgttaaaagGTTGAGAAGGCTAGGACAAACTATGAAAATCTGTCACTATCATCAGCGTGTGAAGCTGTTTTAGAGATTGGAAATGCGGGAAATACCTACATGGATCAAC
















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|78110211|gb|DV528626.1|DV528626
EST:     CAATTGCTGCCGCAGATGGAGGTTTGTTCAGAAATAAGATAGAAAATCTG                         GTGGACAAGGCAAAACACCAATATGAAAATCTTTTACTGTCATCAGCATGT
genomic: CAATTGCTGCCGCAGATGGAGGTTTGTTCAGAAATAAGATAGAAAATCTGgtaagtagat ... gtttttacagGTGGACAAGGCAAAACACCAATATGAAAATCTTTTACTGTCATCAGCATGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcacatgccttgttgtgtctctgttcgagtcaccatgaaaattgtttttacagGTGGACAAGGCAAAACACCAATATGAAAATCTTTTACTGTCATCAGCATGTGAAACTGTTTTAGAGATTGGTGATCTTGGAAACTTGTACATCGATGAGC
                                           ttgttttt  CT-rich tract
                                    atgaaaattgttttta  TA-rich tract