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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattataaatgtggctgggctattacatcatcctgtactttattatctcaatcgtctaattagtaaccatcttgcttgtccagCAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTGGTTGTCGACATCATCCCATCTGATCATTGTTCAACACCACCAGCATTGTCTCCAA

Basic information

species Zea mays
transcript GRMZM2G006429_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006429_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g18970.1 (Oryza sativa), 3'ss of exon 5
------------gtgattataaatg-tggctgggctattacatcatcctg--tactttattatctcaatcgtctaattagtaaccatcttgcttgtccagCAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTGGTTGTCGACATCATCCCATCTGATCATTGTTCAACACCACCAGCATTGTCTCCAA
            ||| ||  |  |  | | |    | |||| | ||   |  | ||| | |||||  ||| || || |   | ||||     |||| |||||||| |||||||||||||||||||||||||||||||| ||||||||||| || ||||||||||||||||||| ||||||||| ||| || | |||||||
gtagtttcacgtgtggtttcagtttcttgtttatatcttactttatatggaatgcttcactatcttgatcatccaactgagatccattcatattgtacagCAAGCACTGAAGACAAGTGGGCTGAAAGATGACACCACCTGTGTGGTTGTTGATATCATCCCATCTGATCATTCTTCAACACCTCCATCACTATCTCCAA
















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|71314548|gb|DR793896.1|DR793896
EST:     AGGCGTGCCGGGGATTACGTGCAGAACTGGCTGCAAAACTTGTTGTTAAG                         CAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTGGTTGTC
genomic: AGGCGTGCCGGGGATTACGTGCAGAACTGGCTGCAAAACTTGTTGTTAAGgtgattataa ... gcttgtccagCAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTGGTTGTC
EST: gi|1546867|gb|AA054810.1|AA054810
EST:     AGGCGTGCCGGGGATTACGTGCAGAACTGGCTGCAAAACTTGTTGTTAAG                         CAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTG-TTGTC
genomic: AGGCGTGCCGGGGATTACGTGCAGAACTGGCTGCAAAACTTGTTGTTAAGgtgattataa ... gcttgtccagCAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTGGTTGTC
EST: gi|26455794|gb|CA827377.1|CA827377
EST:     AGGCGTGCCGGGGATTACGTGCAGAACTGGCTGCAAAACTTGTTGTTAAG                         CAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTGGTTGTC
genomic: AGGCGTGCCGGGGATTACGTGCAGAACTGGCTGCAAAACTTGTTGTTAAGgtgattataa ... gcttgtccagCAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTGGTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catcctgtactttattatctcaatcgtctaattagtaaccatcttgcttgtccagCAAGCTCTGAAGACAAGTGGGCTGAAAGATGACACCACATGTGTGGTTGTCGACATCATCCCATCTGATCATTGTTCAACACCACCAGCATTGTCTCCAA
                                tagtaac  putative branch site (score: 1)
                                         tcttgctt  putative PPT
          tttattatctcaat  TA-rich tract