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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcaaacaattgacatgctaactgctaatttaactgattcccaaaaatcacatgtccagcttcgtaactccagaatcttttccttcaattttctcatcagATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGATGAAAACCGTGATATTTTTACCACACAGACCAGTTTGACTAGGATCCGTG

Basic information

species Zea mays
transcript GRMZM2G404056_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G404056_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g57440.1 (Oryza sativa), 3'ss of exon 3
tgcaaacaattgacatgctaactgctaatttaactgattcccaaaa-atcacatgtccagcttcgtaactccagaatcttttccttcaattttctcatcagATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGATGAAAACCGTGATATTTTTACCACACAGACCAGTTTGACTAGGATCCGTG
|    | |  |   ||   |  ||||||| ||| || || | |||| |       |  |   ||  ||  |   |||| |||| |  ||||| |   |||||| ||||| |||||||||||||| |||||||||||||| ||||| |||||||| ||||  || || || |||||||||||||| ||||| ||||||||||
ttttgaaatctatgataaca-ttgctaatctaattgctttctaaaacactgtgccttgaatatccgaatgctgaaatcatttcatctaatttccctgtcagATTTGGGTCTGGCCCCAGCGCCTTCAGACAATACACCTTCTAGGTATTGATGACAACCAGGAGATCTTCACCACACAGACCAGCTTGACCAGGATCCGTG
















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|91055954|gb|EB166372.1|EB166372
EST:     TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAG                         ATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
genomic: TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAGgttagactta ... ttctcatcagATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
EST: gi|78117402|gb|DV535789.1|DV535789
EST:     TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAG                         ATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
genomic: TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAGgttagactta ... ttctcatcagATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
EST: gi|78084427|gb|DV512820.1|DV512820
EST:     TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAG                         ATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
genomic: TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAGgttagactta ... ttctcatcagATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
EST: gi|78079300|gb|DV507712.1|DV507712
EST:     TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAG                         ATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
genomic: TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAGgttagactta ... ttctcatcagATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
EST: gi|76013943|gb|DT941113.1|DT941113
EST:     TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAG                         ATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT
genomic: TTGGAAAAGAAGACCTCTTGCTTCATATATCTAGAGCACTACAAACGAAGgttagactta ... ttctcatcagATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcacatgtccagcttcgtaactccagaatcttttccttcaattttctcatcagATCTGGGTTTGGCCCCAGCGCCTACAGACAATACACCTCCTAGGGATTGATGAAAACCGTGATATTTTTACCACACAGACCAGTTTGACTAGGATCCGTG
                tcgtaac  putative branch site (score: 2)
                              tcttttccttcaattt  putative PPT
                                      ttcaatttt  TA-rich tract