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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaatgcatgcatgcatgcatccttctgctctattgcgtctctcacattcaaagagtcgacgctcaatcacaactcacatttctctcctcgtcctctgcttcagACAGGGTGTTCAACCCTGAGTGTAGCACACGCCAGGTGTACGAGGAAGGGGCCAAGCAGGTGGCCCTATCGGTGCTCAGCGGCATCAACT

Basic information

species Zea mays
transcript GRMZM2G338928_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G338928_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os09g35890.1 (Oryza sativa), 3'ss of exon 2
gtgagaatgcatgcatgcatgcatccttctgctctattgcgtctctcacattcaaagagtcgacgctcaatcacaactcacatttctctcctcgtcctctgcttcagACAGGGTGTTCAACCCTGAGTGTAGCACACGCCAGGTGTACGAGGAAGGGGCCAAGCAGGTGGCCCTATCGGTGCTCAGCGGCATCAACT
                              | ||    ||  |   | |   | ||    | |     || | |  ||| |  |   || |||| | |    | ||||||||||||||| || ||||||  ||||  | ||||||||||| ||||| |||| |||||| ||| | || |||||||| || |||||| 
------------------------------gttcgtacgccgccgccgccgccgaatg--caattgcaaaccgct-ctcccgctcaccttctcgccgtggtttccagACAGGGTGTTCAGCCATGAGTGCGGCACGAGGCAGGTGTACGACGAAGGCGCCAGGCAGGTCGCCATGTCAGTGCTCAGTGGAATCAACG
















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|78116646|gb|DV535033.1|DV535033
EST:     CCACGGCAACATCCCAGAGCGTGCAATGTTCCCCGCCTCATACACCTACG                         ACAGGGTGTTCAACCCTGAGTGTAGCACACGCCAGGTGTACGAGGAAGGGG
genomic: CCACGGCAACATCCCAGAGCGTGCAATGTTCCCCGCCTCATACACCTACGgtgagaatgc ... tctgcttcagACAGGGTGTTCAACCCTGAGTGTAGCACACGCCAGGTGTACGAGGAAGGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaagagtcgacgctcaatcacaactcacatttctctcctcgtcctctgcttcagACAGGGTGTTCAACCCTGAGTGTAGCACACGCCAGGTGTACGAGGAAGGGGCCAAGCAGGTGGCCCTATCGGTGCTCAGCGGCATCAACT
                      aactcac  putative branch site (score: 2)
                        ctcacatttctctcct  CT-rich tract