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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggatccaaagtggtgatcttttaatggtatggatccaaatttccctttctgaattttcatagcattatttcttttttctaaatgtactattgttctcagAGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCACCTGTTCAAAGTTTTGCTTCTTGGGCATCAAATCATACTCCAATTTCAA

Basic information

species Zea mays
transcript GRMZM2G163159_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G163159_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g48310.1 (Oryza sativa), 3'ss of exon 3
--tggatccaaagtggtg-atcttttaatggtatggatccaaatttccctttctgaattttcatagcattatttcttttttctaaa-tgtactattgttc---tcagAGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCACCTGTTCAAAGTTTTGCTTCTTGGGCATCAAATCATACTCCAATTTCAA
  | |  | |  |      || | |||||    |   ||||   ||   | ||||||  |||||   || |||||||| ||   |  |||| ||||||||   ||||||||| |||||| | |||||||||||| | ||||| | ||| || |||||||| ||||| ||| |   |  |  | |  ||| ||  |    ||      
tattgggctatggcatcccatgtcttaat----tacttcca---ttatttatctgaagcttcatccaatcatttctttattaagaggtgtaatattgttcttctcagAGCCAAAGGGACCGTTCAATGGCACACTTGTATTCATTTGGCCGGCACTCACCAGTTCACAGTATCAATGTTCTGACTCCAATTCCAAGCAGAAGGGGTT
















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|17921903|gb|BM259554.1|BM259554
EST:     AAGATGCTGAGCATGCCAGATTTGCTGCAAGAGAAGTCCAGTCTAGTTCT                         AGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCA
genomic: AAGATGCTGAGCATGCCAGATTTGCTGCAAGAGAAGTCCAGTCTAGTTCTgtaagttgtc ... ttgttctcagAGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCA
EST: gi|78122235|gb|DV540619.1|DV540619
EST:     AAGATGCTGAGCATGCCAGATTTGCTGCAAGAGAAGTCCAGTCTAGTTCT                         AGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCA
genomic: AAGATGCTGAGCATGCCAGATTTGCTGCAAGAGAAGTCCAGTCTAGTTCTgtaagttgtc ... ttgttctcagAGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCA
EST: gi|78108413|gb|DV526831.1|DV526831
EST:     AAGATGCTGAGCATGCCAGATTTGCTGCAAGAGAAGTCTAGTCTAGTTCT                         AGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACT
genomic: AAGATGCTGAGCATGCCAGATTTGCTGCAAGAGAAGTCCAGTCTAGTTCTgtaagttgtc ... ttgttctcagAGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACT
EST: gi|78108412|gb|DV526830.1|DV526830
EST:     AGAGAAGTCCAGTCTAGTTCT                         AGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCA
genomic: AGAGAAGTCCAGTCTAGTTCTgtaagttgtc ... ttgttctcagAGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttctgaattttcatagcattatttcttttttctaaatgtactattgttctcagAGCCAGAGGGACAGATCAATGGCACACCTATATTCTTATGGACGTCACTCACCTGTTCAAAGTTTTGCTTCTTGGGCATCAAATCATACTCCAATTTCAA
                               ttctaaa  putative branch site (score: 2)
                                             ttgttctc  putative PPT
                   attatttcttttttct  TA-rich tract