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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttcgatatggcacaatgcttttcatcacatgtttctcggaattcatgcatgattgtagattctaactcccatcacttttttttccagATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACATTCTCCAGTTTCTTCTCCTGTTCAAACTAGGCGTGACTGGGATTTGTTAG

Basic information

species Zea mays
transcript GRMZM2G104377_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104377_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g01060.1 (Oryza sativa), 3'ss of exon 10
gtttgttcgatatggcacaatgcttttcatcacatgtttctcggaattcatgcatgattgtagattctaactcccatcacttttttttccagATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACATTCTCCAGTTTCTTCTCCTGTTCAAACTAGGCGTGACTGGGATTTGTTAG
              | |  |  ||||  ||| | | | ||    | |   ||  ||  || |  |||||||| |    |     ||   |||| |||||||||||||||||||||||||||||||||||||||||||||||| |||||  | || ||||||||||   |||| ||||| |||||| |||| |
--------------gtatgactcttta-atcccttttctcctttactctttgagtg-ctgcatgttctaacttctcaaa-----ttccgcagAGCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACAATCTCCTATGTCCTCTCCTGTTCGTGCTAGACGTGATTGGGATCTGTTGG
















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|22490477|gb|BU050400.1|BU050400
EST:     ATACAAGTGCTGCTGCACAGTCGCCTTCTCATCCTCCTGGAAATGCATTG                         ATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACAT
genomic: ATACAAGTGCTGCTGCACAGTCGCCTTCTCATCCTCCTGGAAATGCATTGgtttgttcga ... ttttttccagATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACAT
EST: gi|211291095|gb|FL438876.1|FL438876
EST:     ATACAAGTGCTGCTGCACAGTCGCCTTCTCATCCTCCTGGAAATGCATTG                         ATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACAT
genomic: ATACAAGTGCTGCTGCACAGTCGCCTTCTCATCCTCCTGGAAATGCATTGgtttgttcga ... ttttttccagATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACAT
EST: gi|19058176|gb|BM736843.1|BM736843
EST:     ATACAAGTGCTGCTGCACAGTCGCCTTCTCATCCTCCTGGAAATGCATTG                         ATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACAT
genomic: ATACAAGTGCTGCTGCACAGTCGCCTTCTCATCCTCCTGGAAATGCATTGgtttgttcga ... ttttttccagATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACAT
EST: gi|32930925|gb|CF035737.1|CF035737
EST:     ATACAAGTGCTGCTGCACAGTCGCCTTCTCATCCTCCTGGAAATGCATTG                         ATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTA
genomic: ATACAAGTGCTGCTGCACAGTCGCCTTCTCATCCTCCTGGAAATGCATTGgtttgttcga ... ttttttccagATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcggaattcatgcatgattgtagattctaactcccatcacttttttttccagATCAAAGCCAACCTTGACATTGTGCCCCAGCAAGCATATTCTCATGTACATTCTCCAGTTTCTTCTCCTGTTCAAACTAGGCGTGACTGGGATTTGTTAG
                           ttctaac  putative branch site (score: 1)
                                 ctcccatcactttttt  CT-rich tract
                                         actttttttt  TA-rich tract