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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatgctaagcttataatcatgcaagtcttcatgaaaccttgcagttttactacctcaattgccattctgatgatcccattttatgtgtttttgcctcagGAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGATGATGTTGACAGTGCCCTGGGCCTCAGGAATGTTGAG

Basic information

species Zea mays
transcript GRMZM2G013908_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013908_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g32750.1 (Oryza sativa), 3'ss of exon 1
ttatgctaagcttataatcatgcaagtcttca--tgaaaccttgcagttttactacctcaattgccattctgatgatcccattttatgtgtttttgcctcagGAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGATGATGTTGACAGTGCCCTGGGCCTCAGGAATGTTGAG
  |   |  |  | ||| |||  || | ||||     |    |||  ||  | |  |||  | | || | |    ||   ||| |        |||   |||||  |||| || |||||||||||||||||| |||| || ||||| || ||||||||||| ||||| ||  |||||||||||||||||
-caaaatttgtatgtaagcatataaatattcagtcacagaaatgccattccattttctcc-taggcactatatgtattttattatgctgtggattgtgacagGAGGCCATCAAGTGTATGCGGCATGCAAAGAGGACAGTCCTGACTGCCGATGATGTTGATAGTGCTCTCAGCCTCAGGAATGTTGAG
















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|76925484|gb|DV170465.1|DV170465
EST:     CCGTCGCGCTCGCCCCTGACGTCGAATACCGCCTCCGCGAGATCATGCAG                         GAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGAT
genomic: CCGTCGCGCTCGCCCCTGACGTCGAATACCGCCTCCGCGAGATCATGCAGgtcaggcctc ... tttgcctcagGAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGAT
EST: gi|211477176|gb|FL315669.1|FL315669
EST:     CCGTCGCGCTCGCCCCTGACGTCGAATACCGCCTCCGCGAGATCATGCAG                         GAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGAT
genomic: CCGTCGCGCTCGCCCCTGACGTCGAATACCGCCTCCGCGAGATCATGCAGgtcaggcctc ... tttgcctcagGAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGAT
EST: gi|211149894|gb|FL367822.1|FL367822
EST:     CCGTCGCGCTCGCCCCTGACGTCGAATACCGCCTCCGCGAGATCATGCAG                         GAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGAT
genomic: CCGTCGCGCTCGCCCCTGACGTCGAATACCGCCTCCGCGAGATCATGCAGgtcaggcctc ... tttgcctcagGAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGAT
EST: gi|74244039|gb|DT651953.1|DT651953
EST:     CCGTCGCGCTCGCCCCTGACGTCGAATACCGCCTCCGCGAGATCATGCAG                         GAATCCATTAAATGTATGCGGGATGCAAAGCGGACTGTTCTGACGGAGGAT
genomic: CCGTCGCGCTCGCCCCTGACGTCGAATACCGCCTCCGCGAGATCATGCAGgtcaggcctc ... tttgcctcagGAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttactacctcaattgccattctgatgatcccattttatgtgtttttgcctcagGAATCCATTAAATGTATGCGGCATGCAAAGCGGACTGTTCTGACGGCGGATGATGTTGACAGTGCCCTGGGCCTCAGGAATGTTGAG
                    ttctgat  putative branch site (score: 3)
                                           tttttgcctc  putative PPT
                                 attttatgtgttttt  TA-rich tract