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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaccccggccccgcacttcgtttcttacatttttctactttcggcggcgccttccgcgtttgaatctttactggcaagttcatcatttaagttgcagtactcataagcttacaccttcactttcctgtttgcttccataaaatgcgagttccacagCAAGGATGGGTTTTTCTTTTCAGCTTAATCGGCATTACCCCGTTGGCCGAGAGATTGGGATACGCAACTGA

Basic information

species Zea mays
transcript GRMZM2G053004_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G053004_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g27960.1 (Oryza sativa), 3'ss of exon 1
gtaagaaccccggccccgcacttcgtttcttacatttttctactttcggcggcgccttccgcgtttgaa--tctttactggcaagttcatcatttaagttgcagtactcataagcttacaccttcactttcctgtttgcttccataaaatgcgagttccacagCAAGGATGGGTTTTTCTTTTCAGCTTAATCGGCATTACCCCGTTGGCCGAGAGATTGGGATACGCAACTGA
                                                      ||||||   |    |  ||||| |       ||      ||  ||||    |   |    |||     | |   || || |     ||  |  |          ||||||||||||||||||| |||||||||||||||||||| || || ||||| |||||||||||||| || || ||
-----------------------------------------------------accttccatatggagatgtcttttccattccatttccttgttttgttgtgacagcgactgacttttgaatacgtctttctttccttctctgtgga----------cacagCAAGGATGGGTTTTCCTTTTCAGCTTAATCGGCATCACGCCCTTGGCTGAGAGATTGGGATATGCGACCGA
















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|76937004|gb|DV174997.1|DV174997
EST:     TCCCCTTCGGCCCGCTCGCCATCATGCTCCACTACCTCTCCGGAACGCAC                         CAAGGATGGGTTTTTCTTTTCAGCTTAATCGGCATTACCCCGTTGGCCGAG
genomic: TCCCCTTCGGCCCGCTCGCCATCATGCTCCACTACCTCTCCGGAACGCACgtaagaaccc ... agttccacagCAAGGATGGGTTTTTCTTTTCAGCTTAATCGGCATTACCCCGTTGGCCGAG
EST: gi|76011413|gb|DT938583.1|DT938583
EST:     TCCCCTTCGGCCCGCTCGCCATCATGCTCCACTACCTCTCCGGAACGCAC                         CAAGGATGGGTTTTTCTTTTCAGCTTAATCGGCATTACCCCGTTGGCCGAG
genomic: TCCCCTTCGGCCCGCTCGCCATCATGCTCCACTACCTCTCCGGAACGCACgtaagaaccc ... agttccacagCAAGGATGGGTTTTTCTTTTCAGCTTAATCGGCATTACCCCGTTGGCCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataagcttacaccttcactttcctgtttgcttccataaaatgcgagttccacagCAAGGATGGGTTTTTCTTTTCAGCTTAATCGGCATTACCCCGTTGGCCGAGAGATTGGGATACGCAACTGA
    agcttac  putative branch site (score: 3)
                                   ataaaat  TA-rich tract