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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtttctggttttagctttcctgtttggtacatcaggatatcaacgagtgctcatgtgctccaaatccatggtttttatcgcctagtgttgttaatgtttctctggttttgcagtagttgcctgaaagtatctgcacgcctctctatttcagGCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCCATAAGTCTATGTTGGATCAGAAATGTGATTTATCAGAGTTGTGTTCTCA

Basic information

species Zea mays
transcript GRMZM2G480607_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G480607_T06 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 3'ss of exon 2
gtattgtttctggttttagctttcctgtttggtacatcaggatatcaacgagtgctcatgtgctccaaatccatggtttttatcgcctagtgttgttaatgtttctctggttttgcagtagttgcctgaaagtatctgcacgcct---ctctatttcagGCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCCATAAGTCTATGTTGGATCAGAAATGTGATTTATCAGAGTTGTGTTCTCA---
                                                          | |  ||  |  || |||||  |         ||        ||||||   ||  ||   ||  ||||   || ||||   |   ||   || |||||||||||| ||||||||||||||||| || || ||||| || || ||||||||| | ||| ||||||||||||||||    ||| | || ||| ||| ||||||   
---------------------------------------------------------ctcttttctta--ccgtggttactgaacttccctgcctccctggtttcttcagtcatggcttaagtgccctcaaatatcattatctcttacctgtatttcagGCAGGAAGTTCTGGGGCTTTCCACTCTTTGCTGGTGATTGCGCAAGTGGCAACAAGACTATGTTGGATCAGAAG---GATATTTCTGAGCTGTCTTCTCAAAT
















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|211174473|gb|FL037929.1|FL037929
EST:     GGCACACAGCTCTG                         GCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCC
genomic: GGCACACAGCTCTGgtattgtttc ... tctatttcagGCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCC
EST: gi|28987432|gb|CB351631.1|CB351631
EST:     GCCAGGCGGAAGCATCATACTTCTTGTCGTCATCCCGGCACACAGCTCTG                         GCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCC
genomic: GCCAGGCGGAAGCATCATACTTCTTGTCGTCATCCCGGCACACAGCTCTGgtattgtttc ... tctatttcagGCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCC
EST: gi|211174474|gb|FL037930.1|FL037930
EST:     GGCACACAGCTCTG                         GCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCC
genomic: GGCACACAGCTCTGgtattgtttc ... tctatttcagGCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctctggttttgcagtagttgcctgaaagtatctgcacgcctctctatttcagGCAGAAAGTTCTGGGGCTTTCCGCTGTTCGCTGGAGACTGTGCAAGTGGCCATAAGTCTATGTTGGATCAGAAATGTGATTTATCAGAGTTGTGTTCTCA
                                       cgcctctctatttc  CT-rich tract
                           aaagtat  TA-rich tract