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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gataactacttcattcactttttattttctcatcatcaccagcatcttcaaaaagtctaaccatcatgttctttttcacctttttctttgtaactaccagTGATCCGCACACCAGAGGCGAGAACAAATATGATGAAGCTGTCACAGCGGATGATCACTAGTTTCTCTGCCAACATCAGTGCTTCTGGGAGCCAATCTTG

Basic information

species Zea mays
transcript GRMZM2G123140_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123140_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 3'ss of exon 9
----------------------------------------------gataactacttca----ttcactttttattttctcatcatcaccagcatcttcaaaaagtctaaccatcatgttctttttcacctttttctttgtaactaccagTGATCCGCACACCAGAGGCGAGAACAAATATGATGAAGCTGTCACAGCGGATGATCACTAGTTTCTCTGCCAACATCAGTGCTTCTGGGAGCCAATCTTG
                                               | |  |  |  |    |     || |   ||||||  ||   ||  |||       |   |       ||  |||| |  | |  ||| ||| | | |  ||||||||||||| || ||||| ||||||||||||||||||||||| |||||||||||||| | ||||| ||| ||||||||||||||||| | |||||||||
gtgcgcattaccactagctatttgtaaattgtgagaattcagaatccacagtttgtgtagagttgtggattctgaattctcacaattcacaaaatccatcctgaccatttatgatataatcttctcgatccctttgtttctgattcacagTGATCCGCACCCCTGAGGCAAGAACAAATATGATGAAGCTGTCGCAGCGGATGATCACCACTTTCTGTGCTAACATCAGTGCTTCTGGAACCCAATCTTG
















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|149102264|gb|EE287647.2|EE287647
EST:     ATGCGAGCGCCTTGCCAGTGAGCTCGCCCGCAACATCGCCGACCTGGGAG                         TGATCCGCACACCAGAGGCGAGAACAAATATGATGAAGCTGTCACAGCGGA
genomic: ATGCGAGCGCCTTGCCAGTGAGCTCGCCCGCAACATCGCCGACCTGGGAGgtatgctcta ... taactaccagTGATCCGCACACCAGAGGCGAGAACAAATATGATGAAGCTGTCACAGCGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcaaaaagtctaaccatcatgttctttttcacctttttctttgtaactaccagTGATCCGCACACCAGAGGCGAGAACAAATATGATGAAGCTGTCACAGCGGATGATCACTAGTTTCTCTGCCAACATCAGTGCTTCTGGGAGCCAATCTTG
                                          ttgtaac  putative branch site (score: 2)
                  tcatgttctttttcac  CT-rich tract
                                   tttttcttt  TA-rich tract