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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgctcaaaggaaatctcttttctgaactcataattgttgccctgagattaagtaggtaatgatgctttaggtttttgttctgacaatgatgaaatttgactacgcctttgtatcttccagCCGCATTGGTCCAGAAATGTTTGAAGGGGAGGCTCTTGGTTTGAAGGCAATGTATGACACAAAGTCGATCCGTGTTCCGTTGCCATACAAG

Basic information

species Zea mays
transcript GRMZM2G030299_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030299_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g02640.1 (Oryza sativa), 3'ss of exon 2
gtgcgctcaaaggaaatctcttttctgaactcataattgttgccctgagattaagtaggtaatgatgctttaggtttttgttctgacaatgatgaaatttgactacgcctttgtatcttccagCCGCATTGGTCCAGAAATGTTTGAAGGGGAGGCTCTTGGTTTGAAGGCAATGTATGACACAAAGTCGATCCGTGTTCCGTTGCCATACAAG
||| |||       ||  || | | ||||   || || ||  |  ||   ||       || | ||| | | ||||||  |  || ||||||   ||  ||  |||   |   ||| | |||| || |||||||||   |||||||||||||||||||||||||||||||| |||||||||||||| || ||||||||||| ||||||||||||
gtgtgct-------aacttcctctttgaatcaatgat-gt--ctttggagttgcacgattagtcatggtctgggtttt-atagtggcaatgacagaaaatg--tacatttcattatgtgccagGCGTATTGGTCCATCTATGTTTGAAGGGGAGGCTCTTGGTTTGAAGGCCATGTATGACACAAATTCAATCCGTGTTCCATTGCCATACAAG
















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|94475550|gb|EB704508.1|EB704508
EST:     GCTCAGCGCTATGATACCGACGCGGGCCCCTTCTTTGTGAAGACCAACAG                         CCGCATTGGTCCAGAAATGTTTGAAGGGGAGGCTCTTGGTTTGAAGGCAAT
genomic: GCTCAGCGCTATGATACCGACGCGGGCCCCTTCTTTGTGAAGACCAACAGgtgcgctcaa ... tatcttccagCCGCATTGGTCCAGAAATGTTTGAAGGGGAGGCTCTTGGTTTGAAGGCAAT
EST: gi|149014134|gb|EE043676.2|EE043676
EST:     CCTCAGCGCTATGATACCGACGCGGGCCCCTTCTTTGTGAAGACCAACAG                         CCGCATTGGTCCAGAAATGTTTGAAGGGGAGGCTCTTGGTTTGAAGGCAAT
genomic: GCTCAGCGCTATGATACCGACGCGGGCCCCTTCTTTGTGAAGACCAACAGgtgcgctcaa ... tatcttccagCCGCATTGGTCCAGAAATGTTTGAAGGGGAGGCTCTTGGTTTGAAGGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaggtttttgttctgacaatgatgaaatttgactacgcctttgtatcttccagCCGCATTGGTCCAGAAATGTTTGAAGGGGAGGCTCTTGGTTTGAAGGCAATGTATGACACAAAGTCGATCCGTGTTCCGTTGCCATACAAG
                                       cctttgtatcttcc  CT-rich tract
                       atgaaattt  TA-rich tract