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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagattctcatacatatccggcaaacattttatctgggcttgataactatttttcctttctacagAATGAGAGCTATTTTACTCTACGGGACTTAAAACGGTGTAAACTCTCAGGAAATATATTCAATATTCTTTTCAATCTGAACAAGTTCATGGCATTTGAAA

Basic information

species Zea mays
transcript GRMZM2G104254_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104254_T01 (Zea mays), 3'ss of exon 6
lower sequence: PP1S34_411V6.1 (Physcomitrella patens), 3'ss of exon 10
------------------------------------------------------gtagattctcatacatatccggcaaacattttatctgggc---ttgataactatttttcctttctacagAATGAGAGCTATTTTACTCTACGGGACTTAAAACGGTGTAAACTCTCAGGAAATATATTCAATATTCTTTTCAATCTGAACAAGTTCATGGCATTTGAAA
                                                       |||  |   ||  ||    ||     | ||    ||||    ||| | ||   |   | |  || ||||| ||| |  | || || || || ||| | || ||||||||| | || || ||| | ||||||||||| ||||| |||||||||||| | |||||||| |
gtaagcatttgcttttgaagatttgtacaagttcattctcttccttgagttgctttagtgttcaatgaat---tggtcggtacttagcatgggtgtattgttgacatctacccttcactgcagAAAGAGGGACAATTGACACTTCGTGACCTGAAGCGGTGTAAATTATCTGGGAATTTTTTCAATATTCTCTTCAACCTGAACAAGTTCGTAGCATTTGAGA
















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|211505068|gb|FK974736.1|FK974736
EST:     CCAGATGATTGATATGATTGGACCAGAG                         AATGAGAGCTATTTTACTCTACGGGACTTAAAACGGTGTAAACTCTCAGGA
genomic: CCAGATGATTGATATGATTGGACCAGAGgtagattctc ... ctttctacagAATGAGAGCTATTTTACTCTACGGGACTTAAAACGGTGTAAACTCTCAGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacatatccggcaaacattttatctgggcttgataactatttttcctttctacagAATGAGAGCTATTTTACTCTACGGGACTTAAAACGGTGTAAACTCTCAGGAAATATATTCAATATTCTTTTCAATCTGAACAAGTTCATGGCATTTGAAA
                              tgataac  putative branch site (score: 2)
                                    ctatttttcctttcta  CT-rich tract
                             ttgataactattttt  TA-rich tract