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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacgccgccgtcgccatgcatgcacgcacacgcaccttcagaattcagccgcgcgcggccagctcgccatgcgtgtggtgcactgacggcgttaccattgcagTACGCTTGCAGAAAGACCCTGGCGGACAGCAGGCCCCGCGTCCGCGGCAGGTTCGCCAAGAATGACGACTACGGCGAGCCGTCGTCAAGGGTGATGCAGA

Basic information

species Zea mays
transcript GRMZM2G133555_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133555_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g32900.2 (Oryza sativa), 3'ss of exon 3
------------------------------------gtgacgccgccgtcgccatgcatgcacgcacacgcaccttcagaattcagccg--cgcgcggccagctcgccatgcgtgtggtgcactgacggcgttaccattgcagTACGCTTGCAGAAAGACCCTGGCGGACAGCAGGCCCCGCGTCCGCGGCAGGTTCGCCAAGAATGACGACTACGGCGAGCCGTC---GTCAAGGGTGATGCAGA
                                     |  | || ||  | |||  |       || ||| |  ||||     | ||||  | ||   |   |    ||    | |  |  |   |     |      ||||||||||||||||||| ||||| ||||| ||| |||| |||||||| || |||||||||||||| ||||||||| ||||| | ||   ||| |  |    ||   
gcaagaacttccaaattattcaaattcaaattcaaaatatcacccccccccccaacccatatttcaaacgaat-ttcacctcaccgccgaccacgttactgacatctcagattttttttttaaaaaaaaaatc-----tgcagTACGCTTGCAGAAAAACCCTCGCGGATAGCCGGCCTCGCGTCCGTGGTAGGTTCGCCAAGAACGACGACTACTGCGAGGCATCCAGGTCGATCGGCTCGC---

upper sequence: GRMZM2G133555_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g32900.1 (Oryza sativa), 3'ss of exon 3
-----------------------------------------gtgacgccgccgtcgccatgcatgcacgcacacgcaccttcagaattcagccg--cgcgcggccagctcgccatgcgtgtggtgcactgacggcgttaccattgcagTACGCTTGCAGAAAGACCCTGGCGGACAGCAGGCCCCGCGTCCGCGGCAGGTTCGCCAAGAATGACGACTACGGCGAGCCGTC---GTCAAGGGTGATGCAGA
                                          |  | || ||  | |||  |       || ||| |  ||||     | ||||  | ||   |   |    ||    | |  |  |   |     |      ||||||||||||||||||| ||||| ||||| ||| |||| |||||||| || |||||||||||||| ||||||||| ||||| | ||   ||| |  |    ||   
gtgaggcaagaacttccaaattattcaaattcaaattcaaaatatcacccccccccccaacccatatttcaaacgaat-ttcacctcaccgccgaccacgttactgacatctcagattttttttttaaaaaaaaaatc-----tgcagTACGCTTGCAGAAAAACCCTCGCGGATAGCCGGCCTCGCGTCCGTGGTAGGTTCGCCAAGAACGACGACTACTGCGAGGCATCCAGGTCGATCGGCTCGC---
















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|87154115|gb|DY398904.1|DY398904
EST:     AAACGCAACTTCAGAAAGAAGATCAAG                         TACGCTTGCAGAAAGACCCTGGCGGACAGCAGGCCCCGCGTCCGCGGCAGG
genomic: AAACGCAACTTCAGAAAGAAGATCAAGgtgacgccgc ... accattgcagTACGCTTGCAGAAAGACCCTGGCGGACAGCAGGCCCCGCGTCCGCGGCAGG
EST: gi|87155035|gb|DY399824.1|DY399824
EST:     AAACGCAACTTCAGAAAGAAGATCAAG                         TACGCTTGCAGAAAGACCCTGGCGGACAGCAGGCCCCGCGTCCGCGGCAGG
genomic: AAACGCAACTTCAGAAAGAAGATCAAGgtgacgccgc ... accattgcagTACGCTTGCAGAAAGACCCTGGCGGACAGCAGGCCCCGCGTCCGCGGCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgcgcgcggccagctcgccatgcgtgtggtgcactgacggcgttaccattgcagTACGCTTGCAGAAAGACCCTGGCGGACAGCAGGCCCCGCGTCCGCGGCAGGTTCGCCAAGAATGACGACTACGGCGAGCCGTCGTCAAGGGTGATGCAGA
                                cactgac  putative branch site (score: 2)