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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgttgctgtgaatattaacctgtttagtatggtatgcacattcatttggcaggtttacttaatgtccaaaatctgatagtaatttttctttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA

Basic information

species Zea mays
transcript GRMZM5G801409_T04
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G801409_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g06750.1 (Oryza sativa), 3'ss of exon 2
atgttgctgtgaatattaacctgtttagtat-ggtatgcacattcatttggc-aggtttacttaatgtccaaaatctgatagtaatttttctttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA
 | || ||      | |   ||  |  ||     | |||||   || |||   | || |  |||   | | || ||||||| |   || ||| || ||||||||||||||||||| | |||||||| ||| || || ||||| |||||  ||||  | || ||||||||||| ||||| |||||||| |||||||| |||||
-tttttcttgttccagtcgtcttctcggtgccattttgcactgccagttgtttatgtgtgattacactaccaa-tctgatattttgttctctgttattgcagTGAAGTCATTCCCCAAGGATGACGTCAACAAACCATGCCACCTCACCTCCTTTGTCGGTTACAAGGCTGGAATGACCCACATTGTGCGTGAGGTCGAGAA
















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|211158271|gb|FL403878.1|FL403878
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGG                         TGAAGTCATTCCCTAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGGgtacgcgcgc ... ttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211133812|gb|FL389470.1|FL389470
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGG                         TGAAGTCATTCCCTAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGGgtacgcgcgc ... ttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211286183|gb|FL403232.1|FL403232
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGG                         TGAAGTCATTCCCTAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGGgtacgcgcgc ... ttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211223980|gb|FL295886.1|FL295886
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGG                         TGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGGgtacgcgcgc ... ttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211226042|gb|FL295896.1|FL295896
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGG                         TGAAGTCATTCCCTAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGGgtacgcgcgc ... ttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211223978|gb|FL295884.1|FL295884
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGG                         TGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGTCACCGCGGCAAGGgtacgcgcgc ... ttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggcaggtttacttaatgtccaaaatctgatagtaatttttctttttttgcagTGAAGTCATTCCCTAGGGATGACGCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA
                          atctgat  putative branch site (score: 4)
                                      tttttctttttttgc  putative PPT
                       aaaatctgatagtaat  TA-rich tract