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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttgttggtgcaggttaactaatcaacatacatatgtgaacacttatcaccatttcatcttttcatttgttggaagttaacaattattctgcatacagCCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGTGGCAGTTACTGTCAGTAGTTTTCATGAAGTGAAAAGACTATATGAAGTG

Basic information

species Zea mays
transcript GRMZM2G018951_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G018951_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g15540.1 (Oryza sativa), 3'ss of exon 5
attttgttggtgcaggtt-aactaatcaacatacatatgtgaacacttatcaccatttcatcttttcattt--gttggaagttaacaattattctgcatacagCCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGTGGCAGTTACTGTCAGTAGTTTTCATGAAGTGAAAAGACTATATGAAGTG
  |  | |  | |||||| || |       ||| ||  ||| ||| |||| | | || ||| | || | ||    |   | |||    ||||  ||||| |||||| ||||||||| |||| || ||||| ||||| ||||||||| | || || ||||||||||| | ||||||||| |||||||||||| | |||||| ||
--taggataatacaggtttaattcgcttttatatatccgtgcacatttataaactttgcatttattgaattaaactattatttattgtttatg-tgcatccagCCTCTCCATTAAATCAGACCCTGATGGTGGCATTGAGATTGAAGATCTGGTAGCAGTTACTGTGAATAGTTTTCAAGAAGTGAAAAGATTGTATGAAATG
















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|16927247|gb|BM080316.1|BM080316
EST:     GACCTGCTAGTTCCAAGAGGCAAGGCACAAGGTTTTAAGAAGGTACCAAG                         CCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGT
genomic: GACCTGCTAGTTCCAAGAGGCAAGGCACAAGGTTTTAAGAAGGTACCAAGgtaataaaaa ... ctgcatacagCCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGT
EST: gi|28873343|gb|CB329345.1|CB329345
EST:     GACCTGCTAGTTCCAAGAGGCAAGGCACAAGGTTTTAAGAAGGTACCAAG                         CCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGT
genomic: GACCTGCTAGTTCCAAGAGGCAAGGCACAAGGTTTTAAGAAGGTACCAAGgtaataaaaa ... ctgcatacagCCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGT
EST: gi|28910659|gb|CB331549.1|CB331549
EST:     GACCTGCTAGTTCCAAGAGGCAAGGCACAAGGTTTTAAGAAGGTACCAAG                         CCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGT
genomic: GACCTGCTAGTTCCAAGAGGCAAGGCACAAGGTTTTAAGAAGGTACCAAGgtaataaaaa ... ctgcatacagCCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcaccatttcatcttttcatttgttggaagttaacaattattctgcatacagCCTTTCCATTAAAACAGATCCAGATGGCGGCATCGAGATTGAAAACCTAGTGGCAGTTACTGTCAGTAGTTTTCATGAAGTGAAAAGACTATATGAAGTG
                               agttaac  putative branch site (score: 3)
                                        ttattct  putative PPT
                              aagttaacaattatt  TA-rich tract