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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagctaagcatatataagctgcctctcttacttcaccatcacccaataatgtaacaaggcatgactccggtgcagAGTCGGAGCACGGCATCTTCAACGCCATCCTGAGGGGGCAGGTCGACTTCACCAGCGACCCATGGCCGCGCATCTCGCAGGGCGCCAAGGACCTCGTCAG

Basic information

species Zea mays
transcript GRMZM2G340224_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G340224_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g41270.1 (Oryza sativa), 3'ss of exon 2
-----------------------------------------gca-agctaagcatatataag-ctgcctctcttacttcaccatc-acccaataatgtaacaagg-catgactccggtg---cagAGTCGGAGCACGGCATCTTCAACGCCATCCTGAGGGGGCAGGTCGACTTCACCAGCGACCCATGGCCGCGCATCTCGCAGGGCGCCAAGGACCTCGTCAG
                                         ||| |   ||   |  || |  |||| |   ||| ||     ||    ||||    | || ||  || || |  || |   |||| ||||||||||||||||||||| ||||| |||| ||||| |||||||||| |||||| |||||| ||||||||||||| |||||||||||||| |||||
gcaagctgctgctgttcatcgccatggttttttaagctaaagcagaaagaatggttcatgattctgcttgcgttaattttttttctgaacaatttaatgacgagatcaagatttgggcgtggcagAATCGGAGCACGGCATCTTCAACTCCATCTTGAGAGGGCATGTCGACTTCAGCAGCGAGCCATGGTCGCGCATCTCGCATGGCGCCAAGGACCTTGTCAG
















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|71417165|gb|DR803942.1|DR803942
EST:     CGGCGTCATAGTCTACATCCTGCTCTCCGGCGTTCCGCCCTTCTGGGCAG                         AGTCGGAGCACGGCATCTTNCA-CGCCATCCTGAGGGGGCAGGTCGACTTC
genomic: CGGCGTCATAGTCTACATCCTGCTCTCCGGCGTTCCGCCCTTCTGGGCAGgcaagctaag ... tccggtgcagAGTCGGAGCACGGCATCTT-CAACGCCATCCTGAGGGGGCAGGTCGACTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctctcttacttcaccatcacccaataatgtaacaaggcatgactccggtgcagAGTCGGAGCACGGCATCTTCAACGCCATCCTGAGGGGGCAGGTCGACTTCACCAGCGACCCATGGCCGCGCATCTCGCAGGGCGCCAAGGACCTCGTCAG
                            atgtaac  putative branch site (score: 3)
                        aataatgtaa  TA-rich tract