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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcacgtatctaatttaatctctctctctctctctctctctctctctctctctctctctctgaagagggatgtgaattgttggaaccgccattaattcgctgactgccctatctacatctactttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCCTTCTTCCTGGTGCTGAGCGCCGTGATCTGGTTCGCGTACGGCGCGCTGA

Basic information

species Zea mays
transcript GRMZM5G872392_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G872392_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g30910.1 (Oryza sativa), 3'ss of exon 3
gcacgtatctaatttaatctctctctctctctctctctctctctctctctctctctctctgaagagggatgtgaattgttggaaccgccattaattcgctgactgccctatctacatctactttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCCTTCTTCCTGGTGCTGAGCGCCGTGATCTGGTTCGCGTACGGCGCGCTGA
                            ||  |   |     |  |||   | |||  || |  |       || | | |  | | ||   | ||  |   |  |  ||    |    |   ||  ||||| ||| |||| ||||||||||||||||||||||||||||  ||||||| ||||||||||||||||| ||||| ||||||||||||  ||||||   ||| |
-----------------------gtaagctagcaaacgaatgcaatcttgatgtcttgctaactaatcgctcga-tcgatcaaccagcagctgat--gacaag-gttctgatgattgttgtgttt-tgcagAGGCTGGTGATCCGGACCAAGAGCGTGGAGTTCATGCCATTCTCGCTATCCTTCTTCCTGGTGCTTAGCGCGGTGATCTGGTTCTTGTACGGGCTGCTCA
















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|76932560|gb|DV173072.1|DV173072
EST:     TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATG                         CGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGTTCTCC
genomic: TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATGgcacgtatct ... tttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
EST: gi|78107297|gb|DV525715.1|DV525715
EST:     TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATG                         CGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
genomic: TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATGgcacgtatct ... tttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
EST: gi|78078045|gb|DV506460.1|DV506460
EST:     TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATG                         CGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
genomic: TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATGgcacgtatct ... tttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
EST: gi|78112515|gb|DV530909.1|DV530909
EST:     TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATG                         CGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
genomic: TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATGgcacgtatct ... tttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
EST: gi|91052897|gb|EB163315.1|EB163315
EST:     TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATG                         CGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
genomic: TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATGgcacgtatct ... tttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
EST: gi|71442764|gb|DR823814.1|DR823814
EST:     TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATG                         CGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
genomic: TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATGgcacgtatct ... tttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
EST: gi|149098019|gb|EE183966.2|EE183966
EST:     TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATG                         CGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC
genomic: TCTGCGTCAGCGTCGCGCTCAGCGTATTCGCCGCGCCGCTCAGCATCATGgcacgtatct ... tttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttggaaccgccattaattcgctgactgccctatctacatctactttcctgcagCGGCAGGTGGTCCGGACCAAGAGCGTGGAGTTCATGCCCATCTCGCTCTCCTTCTTCCTGGTGCTGAGCGCCGTGATCTGGTTCGCGTACGGCGCGCTGA
                    cgctgac  putative branch site (score: 3)
                                        tctactttcct  putative PPT
             attaatt  TA-rich tract