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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgagtggggcacatgactgagttgtttaatagtaattttttctctcatctatcataagttgtaactaaaattctcattgtatatatactgcccttttcagATATGTTGCCCTAAACATGCTTATGAAGGCCATTGCTGTAGACACACAAGCGGTGCAGAGGCACAGGGCAACAATATTAGAGTGTGTCAAG

Basic information

species Zea mays
transcript GRMZM2G030144_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030144_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os06g07090.1 (Oryza sativa), 3'ss of exon 6
tgagtggggcacatgactgagttgtttaatagtaattttttctctcat---ctatcataagttgtaactaa-aattctcattgtatatatactgcccttttcagATATGTTGCCCTAAACATGCTTATGAAGGCCATTGCTGTAGACACACAAGCGGTGCAGAGGCACAGGGCAACAATATTAGAGTGTGTCAAG
| ||| | || || | |||| | || | |||| || | ||| | | | | | |||||||| ||| ||| ||| ||||||||||||||| || |||||||||||||||||||| | |||||||| ||||| ||||||||||| || ||||||||||||||||||||||||
-aaatggagggaataacacatttgtatgatttaggtgttttgactagtaaaatattcttccatatgagagataattctcagtgtgcatactgtgc---tttcagATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGCAGTGCAGAGGCATAGAGCAACAATATTAGAGTGTGTCAAG
















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|22489954|gb|BU049877.1|BU049877
EST:     GCAATTAATATTTTGGGCCGGTTTTTGTCCAACCGCGATAACAACATAAG                         ATATGTTGCCCTAAACATGCTTATGAAGGCCATTGCCGTAGACACACAAGC
genomic: GCAATTAATATTTTGGGTCGGTTTTTGTCCAACCGCGATAACAACATAAGgtagatttgc ... cccttttcagATATGTTGCCCTAAACATGCTTATGAAGGCCATTGCTGTAGACACACAAGC
EST: gi|18649660|gb|BM498479.1|BM498479
EST:     GCAATTAATATTTTGGGCCGGTTTTTGTCCAACCGCGATAACAACATAAG                         ATATGTTGCCCTAAACATGCTTATGAAGGCCATTGCCGTAGACACACAAGC
genomic: GCAATTAATATTTTGGGTCGGTTTTTGTCCAACCGCGATAACAACATAAGgtagatttgc ... cccttttcagATATGTTGCCCTAAACATGCTTATGAAGGCCATTGCTGTAGACACACAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catctatcataagttgtaactaaaattctcattgtatatatactgcccttttcagATATGTTGCCCTAAACATGCTTATGAAGGCCATTGCTGTAGACACACAAGCGGTGCAGAGGCACAGGGCAACAATATTAGAGTGTGTCAAG
                 aactaaa  putative branch site (score: 2)
 ctgcccttttc  putative PPT
 taaaattctcattgta  TA-rich tract