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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtctatttcttgttagatgttgtactacgtgggattatttgagattaataggcatatttttgttttcatgtatctagccatgtggttcaccatgtttcagGATATAGCTAGCGAACACCCTGAGAGATTTTTTGTTGGTGAAATAGTGAGGGAAAAGATTTTTGTTCAGTACAGGCAGGAAATTCCTTATTCATGCCAG

Basic information

species Zea mays
transcript GRMZM2G158024_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158024_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g49220.2 (Oryza sativa), 3'ss of exon 5
---------gtctatttcttg-ttagatgttgtactacgtgggattatt--tgagattaataggcatatttttgttttcatgtatctagccatgtggttcaccatgtttcagGATATAGCTAGCGAACACCCTGAGAGATTTTTTGTTGGTGAAATAGTGAGGGAAAAGATTTTTGTTCAGTACAGGCAGGAAATTCCTTATTCATGCCAG
|| | | |||| || |||||| ||| | || | | ||| | || || || || ||| | |||||| ||| | ||| ||||| |||||||| || |||||||||||||||||||| || ||||||||||| |||||||||||| ||||||| | || |||||||| ||| | || |||
actcacgatatccagtgcttgctttgatgtttaactgcagccaataaatactgatactacaagatat---------caaatatatttgttcatgtgattctc---gttccagGACATAGCTAGTGAGCACCCTGAGAGATTTTTTGTGGGGGAAATAGTGAGAGAAAAGATTTTTCTTCAGTATCGTCAAGAAATTCCATATGCTTGTCAG
















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|149086133|gb|EE175673.2|EE175673
EST:     AGGAGTGGATATTGTCAAAGCTCCCTCTGGGTCCTGCTTACTACCCCAAG                         GATATAGCTAGCGAACACCCTGAGAGATTTTTTGTTGGTGAAATAGTGAGG
genomic: AGGAGTGGATATTGTCAAAGCTCCCTCTGGGTCCTGCTTACTACCCCAAGgtattagcaa ... catgtttcagGATATAGCTAGCGAACACCCTGAGAGATTTTTTGTTGGTGAAATAGTGAGG
EST: gi|211086607|gb|FL455573.1|FL455573
EST:     GAGTGGATATTGTCAAAGCTCCYTCTGGGTCCTGCTTACTACCCCAAG                         GATATAGCTAGCGAACACCCTGAGAGATTTTTTGTTGGTGAAATAGTGAGG
genomic: GAGTGGATATTGTCAAAGCTCCCTCTGGGTCCTGCTTACTACCCCAAGgtattagcaa ... catgtttcagGATATAGCTAGCGAACACCCTGAGAGATTTTTTGTTGGTGAAATAGTGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taataggcatatttttgttttcatgtatctagccatgtggttcaccatgtttcagGATATAGCTAGCGAACACCCTGAGAGATTTTTTGTTGGTGAAATAGTGAGGGAAAAGATTTTTGTTCAGTACAGGCAGGAAATTCCTTATTCATGCCAG
 gattaat  putative branch site (score: 3)
 atatttttgttttcat  TA-rich tract