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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acctttgcgtattttttatgttgcttaacttgcagtttatgtatgtgatagaacagtctgcagcagtgctcacatcttccatgtgtatttgtttttgcagATGGGTTAATGCAGCACCTTGTGACAGCTGTGGGCCGTGAGACATCCAATGTTGGAATGGGCACCCCACTTACCTCAGAAATCAAATTTGGCGCTTCACG

Basic information

species Zea mays
transcript GRMZM2G173416_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173416_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g31460.1 (Oryza sativa), 3'ss of exon 6
acctttgcgtattttttatgttgcttaacttgcagtttatgtatgtgatagaacagtctgcagcagtgctcacatcttc----catgtg-------tatttgtttttgcagATGGGTTAATGCAGCACCTTGTGACAGCTGTGGGCCGTGAGACATCCAATGTTGGAATGGGCACCCCACTTACCTCAGAAATCAAATTTGGCGCTTCACG-
         || |||  ||| ||||||     ||   | |   | | ||||||    || |    |  |||| || | |    | ||||       |  || | ||||||||||||| |||||| |||| || ||||||||||| |||||| |||| ||||||||||||||||||| ||||| |||||||||| |||||||| ||    || 
--------atactttc-atgatgcttacagaaca--ctgtacttttcatagaaagacctacgatggaactcatatgtgctcatcttgtgatgatgatgcttttgtttgcagATGGGTCAATGCACCACCCTGCGACAGCTGTGG-CCGTGAAACATTCAATGTTGGAATGGGCACCGCACTTCCCTCAGAAATTAAATTTGGTGCCAATCGC
















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|211007212|gb|FL448365.1|FL448365
EST:     AAGCATGCCTTTCTGCTGCAATTGCTTTTTTGGTTTAAGCAATCATTCAG                         ATGGGTTAATGCAGCACCTTGTGACAGCTGTGG-CCGTGAGACATCCAATG
genomic: AAGCATGCCTTTCTGCTGCAATTGCTTTTTTGGTTTAAGCAATCATTCAGgtcactgaaa ... gtttttgcagATGGGTTAATGCAGCACCTTGTGACAGCTGTGGGCCGTGAGACATCCAATG
EST: gi|166439809|gb|EG291901.1|EG291901
EST:     AAGCATGCCTTTCTGCTGCAATTGCTTTTTTGGTTTAAGCAATCATTCAG                         ATGGGTTAATGCAG
genomic: AAGCATGCCTTTCTGCTGCAATTGCTTTTTTGGTTTAAGCAATCATTCAGgtcactgaaa ... gtttttgcagATGGGTTAATGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatagaacagtctgcagcagtgctcacatcttccatgtgtatttgtttttgcagATGGGTTAATGCAGCACCTTGTGACAGCTGTGGGCCGTGAGACATCCAATGTTGGAATGGGCACCCCACTTACCTCAGAAATCAAATTTGGCGCTTCACG
                     tgctcac  putative branch site (score: 2)
                                          tttgttttt  putative PPT
                                        tatttgttttt  TA-rich tract