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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctggtagtaggtaacttcaaatatatcctcacatctgcttgactttcgaggcattgatttttgcgcccctctttttcactactagGTTGTACTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGACATTGTGAGCACTCGGATGCTTGGTCAGTATGGTTTTTCTGGCAAGG

Basic information

species Zea mays
transcript GRMZM2G300862_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G300862_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g70300.2 (Oryza sativa), 3'ss of exon 8
gtctggtagtaggtaacttcaaatatatcctcacatc-----tgcttgactttcgaggcattgatttttgcgcccctctttttcactac--------tagGTTGTACTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGACATTGTGAGCACTCGGATGCTTGGTCAGTATGGTTTTTCTGGCAAGG
||||| ||| || | | || ||| || | ||||||||        |  ||| ||| | ||| ||||||    |   | || || | |          |||||||| ||||||||||||||||||||||||||||||||||||||||| || || |||||||||||||||||||| | ||||||| ||||||| |
gtctg-tagcagattaattaaaacatgttctcacatcagtaccattcaactctcgggccatggattttatttctattgttctttatttttctctggatagGTTGTGCTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGATATAGTAAGCACTCGGATGCTTGGTCAATTTGGTTTT-CTGGCAAAG

upper sequence: GRMZM2G300862_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g70300.3 (Oryza sativa), 3'ss of exon 8
gtctggtagtaggtaacttcaaatatatcctcacatc-----tgcttgactttcgaggcattgattt--------ttgcgcccctctttttcactactagGTTGTACTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGACATTGTGAGCACTCGGATGCTTGGTCAGTATGGTTTTTCTGGCAAGG-------
||||| ||| || | | || ||| || | ||||||||        |  ||| ||| | ||| |||||        |||  |     ||||       |||||||| ||||||||||||||||||||||||||||||||||||||||| || || |||||||||||||||||||| | ||||||| ||||||| |       
gtctg-tagcagattaattaaaacatgttctcacatcagtaccattcaactctcgggccatggattttatttctattgttctttatttttctctggatagGTTGTGCTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGATATAGTAAGCACTCGGATGCTTGGTCAATTTGGTTTT-CTGGCAAAGGTATGTT
















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|149101053|gb|EE187151.2|EE187151
EST:     AGACAAAGAGACATGGATAAG                         GTTGTACTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGACATT
genomic: AGACAAAGAGACATGGATAAGgtctggtagt ... tcactactagGTTGTACTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGACATT
EST: gi|76911222|gb|DV164206.1|DV164206
EST:     ACCCTAAAGCTCCAGGCACCCTTATTACCAGACAAAGAGACATGGATAAG                         GTTGTACTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGACATT
genomic: ACCCTAAAGCTCCAGGCACCCTTATTACCAGACAAAGAGACATGGATAAGgtctggtagt ... tcactactagGTTGTACTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatctgcttgactttcgaggcattgatttttgcgcccctctttttcactactagGTTGTACTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGACATTGTGAGCACTCGGATGCTTGGTCAGTATGGTTTTTCTGGCAAGG
                           tttttgcgcccctctt  CT-rich tract
                      attgattttt  TA-rich tract