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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctatctctatgtgttatgctgttttatgttctattacgggtgatctggataaattcttacatgatttagttaaacctcaaatgttttctctcccctgtaaaaaacactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATATTCTATGTTGATAAACGTTTGCAAGGCTGGCTTCCTGAGCGTCTTGTTG

Basic information

species Zea mays
transcript GRMZM2G409430_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G409430_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g54240.2 (Oryza sativa), 3'ss of exon 1
gtctctatctctatgtgttatgctgttttatgttctattacgggtgatctggataaattcttacatgatttagttaaacctcaaatgttttctctcccctgtaaaaaacactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATATTCTATGTTGATAAACGTTTGCAAGGCTGGCTTCCTGAGCGTCTTGTTG
||  | || ||||||||| |   |||||  |||| | || |      | ||  | || |   |  |  |||  ||     |  || ||  |         ||| |    |  ||  |||| | |||||| || || ||||||| |||||| ||||||||||| |||||||||| |||||||||||  ||||||   |||||||| |||||||||||||
gtgaccatatctatgtgtcacattgtttcctgttttcttgctttgcctttgtttgaagttaaatttactttt-ttgcctatagaaagtaattg-------gtatattttatcttgcagGTCAAGGAGAAGCCTACTAGTTTAAAGGCTGCGTGGGAGTTGCTAGAGATATTCTTTGTTGATAAACAGTTGCAAACTTGGCTTCCAGAGCGTCTTGTTG
















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|18661883|gb|BM501632.1|BM501632
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
EST: gi|101391554|gb|EB817713.1|EB817713
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
EST: gi|71423081|gb|DR805945.1|DR805945
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
EST: gi|149010019|gb|EE041829.2|EE041829
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
EST: gi|101401938|gb|EB822595.1|EB822595
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
EST: gi|71449560|gb|DR830610.1|DR830610
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
EST: gi|149015081|gb|EE044836.2|EE044836
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
EST: gi|78113107|gb|DV531501.1|DV531501
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
EST: gi|18963165|gb|BM660276.1|BM660276
EST:     ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAG                         GCTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA
genomic: ACCCAGACCCTTCTGGTTTCATGATTGAAGAACCCAAGACAATTCTTAAGgtctctatct ... cactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgatttagttaaacctcaaatgttttctctcccctgtaaaaaacactttaaagGTTAGGGAGAAACCCACAAGTTTAAGGGCTGCTTGGGAGTTGCTGGAGATATTCTATGTTGATAAACGTTTGCAAGGCTGGCTTCCTGAGCGTCTTGTTG
                                      taaaaaacactttaaa  TA-rich tract