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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccaccatactcattatggatcaatagcagccctggggtttttgatcttgacgacggtaattgtatttcctgccagGTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGCGTGTGCTTCTCGCTCTTCTCCCCGGCGTTCAACCTGGCCACTAACGACC

Basic information

species Zea mays
transcript GRMZM2G025528_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025528_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g31850.1 (Oryza sativa), 3'ss of exon 6
--------------------------------------------gtaaccaccatactcattatggatcaatagcagccctggggtttttgatcttgacgacggtaattgtatttcctgc-cagGTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGCGTGTGCTTCTCGCTCTTCTCCCCGGCGTTCAACCTGGCCACTAACGACC
                                              || ||  |     ||||||||| || |   |  |    |   | |||  |||    | | |   | |    ||| ||||| ||||| |||| ||||||||| ||||| ||||| || |||||| | || || |||||||| |||||||||||||| |||||||| ||||| || ||||
gtaattcggtcactgccattctaatcatcctttatcatgcttgttgaatcaataccaaaattatggatgaaaacttgtaccaatgaactagat--tgatc-tgatgaacctctccgttgcgcagGTGTTCGGATCAAGCACCTTCATAGGGCTTGGGATAGTGTTCTTCTCAGGAGTCTGCTTCTCACTCTTCTCCCCGGCATTCAACCTCGCCACCAATGACC
















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|71323984|gb|DR798678.1|DR798678
EST:     CAGGCACTGCAGAGTACCTCATTGAGCTTGAAGAACGGCGATCAATTAAG                         GTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
genomic: CAGGCACTGCAGAGTACCTCATTGAGCTTGAAGAACGGCGATCAATTAAGgtaaccacca ... ttcctgccagGTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
EST: gi|12047316|gb|BF729455.1|BF729455
EST:     ACGGCGATCAATTAAG                         GTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
genomic: ACGGCGATCAATTAAGgtaaccacca ... ttcctgccagGTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
EST: gi|8577359|gb|BE129996.1|BE129996
EST:     CAGGCACTGCAGAGTACCTCATTGAGCTTGAAGAACGGCGATCAATTAAG                         GTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
genomic: CAGGCACTGCAGAGTACCTCATTGAGCTTGAAGAACGGCGATCAATTAAGgtaaccacca ... ttcctgccagGTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
EST: gi|78180005|gb|DV550378.1|DV550378
EST:     CAGGCACTGCAGAGTACCTCATTGAGCTTGAAGAACGGCGATCAATTAAG                         GTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
genomic: CAGGCACTGCAGAGTACCTCATTGAGCTTGAAGAACGGCGATCAATTAAGgtaaccacca ... ttcctgccagGTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
EST: gi|32849972|gb|CD989653.1|CD989653
EST:     ACCTCATTGAGCTTGAAGAACGGCGATCAATTAAG                         GTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC
genomic: ACCTCATTGAGCTTGAAGAACGGCGATCAATTAAGgtaaccacca ... ttcctgccagGTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatagcagccctggggtttttgatcttgacgacggtaattgtatttcctgccagGTATTCGGTTCAAACACCTTCATCGGGCTGGGGATCGTCTTCTTCGCGGGCGTGTGCTTCTCGCTCTTCTCCCCGGCGTTCAACCTGGCCACTAACGACC
                        tcttgac  putative branch site (score: 3)
                                            tttcctgcc  putative PPT
                                    taattgtattt  TA-rich tract