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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacatcaccctgtcaatctcacctagtttccattcgtgctcaaatgggcataagcagtttttgagtttgactgctgagagctgacactatattattccagATAACATCAACGGCTGGTGGTGGTACTTTGACACTGGAATTTGGCATATTGAGTCGCTTGACTAATAATACTG

Basic information

species Zea mays
transcript GRMZM2G173868_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g56670.3 (Oryza sativa), 3'ss of exon 6
-aacatcaccc-tgtcaatctcacctagtttccattcgtgctcaaatgggcataagcagtttttgagtttgactgctgagagctgacactatattattc-cagATAACATCAACGGCTGGTGGTGGTACTTTGACACTGGAATTTGGCATATTGAGTCGCTTGACTAATAATACTG
 | ||  ||    ||  |    |   | ||     | |   | | |||| ||||| || ||  |||| || | | |||| |     || | || || |  |||||||| ||||| ||||||||||| ||||||||||||||||||||  |  ||||||| ||||||||| |||  |
catcagtacaagcgttgaaagtagaaaattgtacctggctattagatggacataaaca-ttcctgagattaattactgaca--cagcattttagtaataacagATAACTTCAACAGCTGGTGGTGGCACTTTGACACTGGAATTTGGTGTCCTGAGTCGTTTGACTAATGATAGCG

upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 6
lower sequence: AT5G43710.1 (Arabidopsis thaliana), 3'ss of exon 6
------aacatcaccctgtcaatctcacctagtttccattcgtgctcaaatgggcataagcagtttttgagtttgactgctgagagctgacactatattattccagATAACATCAACGGCTGGTGGTGGTACTTTGACACTGGAATTTGGCATATTGAGTCGCTTGACTAATAATACTG
       | || |  |||   || |   ||  || |   || |  ||   ||   ||    |  ||   |  |    |  | |    |     | | ||  | |||||||||||||| || ||||||||||||||| |  | || |||||| |  | ||||| || || ||| || |||
agagttgagattaaactgctcattt--tctgcttgctgatctta-tcttttg---attcctatattggaaactcatttattcatgcatctttgtttgtttgttcagATAACATCAACTGCCGGTGGTGGTACTTTGTCTTTAGAGTTTGGCGTGCTTAGTCGTTTAACAAATGATCCTG
















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|76281155|gb|DV020723.1|DV020723
EST:     AGCTGCTGACTTAGCTCAGAGGTTGTTGCCCGCATTTGACACTCCTACAG                         ATAACATCAACGGCTGGTGGTGGTACTTTGACACTGGAATTTGGCATATTG
genomic: AGCTGCTGACTTAGCTCAGAGGTTGTTGCCCGCATTTGACACTCCTACAGgttcatcacc ... attattccagATAACATCAACGGCTGGTGGTGGTACTTTGACACTGGAATTTGGCATATTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggcataagcagtttttgagtttgactgctgagagctgacactatattattccagATAACATCAACGGCTGGTGGTGGTACTTTGACACTGGAATTTGGCATATTGAGTCGCTTGACTAATAATACTG
                                 agctgac  putative branch site (score: 3)
                                              ttattcc  putative PPT
                                        actatattatt  TA-rich tract