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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctctgttacctgctagtattaatactactttactgagttctattgacctaacaattcaaactttctacagATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACTTATTTTCCTGCCTGTGGTACAATGAAGTTGATCGATTCACACCTCGTGA

Basic information

species Zea mays
transcript GRMZM2G011404_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G011404_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os11g09170.1 (Oryza sativa), 3'ss of exon 5
gtatgctctgttacctgctagtattaatactactttactgagttctattgacctaacaattca---------------------aactttctacagATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACTTATTTTCCTGCCTGTGGTACAATGAAGTTGATCGATTCACACCTCGTGA
||||||  | || ||||||||| ||| | ||| | || |||| | | |||| ||||   ||                       |||||| |||||||||||||||||| ||||| ||||  || || |||||||| ||||||||||||||||| ||||| |||| |||||| |||||||||||||||||||||||
gtatgcattcttgcctgctagt-ttattgctagtgta-tgagctattttgatctaagtttttcttcttctttttttttttggttaactttgtacagATGTCCCTGAAGGTTCTTTCATCGTGAGGGAACACACACCAATGTCCAACTTATTTTCATGCCTATGGTTCAATGAGGTTGATCGATTCACACCTCGTGA

upper sequence: GRMZM2G011404_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA20G31590.1 (Glycine max), 3'ss of exon 7
gtatgctctgtta-----------cctgctagtattaatact---actttactgagt---tctattgacctaacaattcaaactttct-acagATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACTTATTTTCCTGCCTGTGGTACAATGAAGTTGATCGATTCACACCTCGTGA
||||| |||||||             | ||  | | ||| ||   | |||  ||| |   | || |||  | ||   | | |  || | |||||||| |||||||| ||||||||    ||||  ||||| |||||||| || || |||||||| ||||||| |||||||||||| || || || ||||||||
gtatgttctgttaatgatttttgtttttcttctgtcaattctcgaaatttgttgattaaatgtactgaaatgacttataatatcttttgacagATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATTTGTTTTCCTGTCTGTGGTTCAATGAAGTTGACCGGTTTACCCCTCGTGA

upper sequence: GRMZM2G011404_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv18s0072g01020.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------gtatgctctgttacctgctagtattaatactactttactgagttctattgacctaacaattcaaactttctacagATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACTTATTTTCCTGCCTGTGGTACAATGAAGTTGATCGATTCACACCTCGTGA
                                ||||||   ||  | ||| | ||   || |  ||| |  || | | || |  |     ||    || |  |||||||| |||||||| |||||||| |  ||||  ||||| || ||||| ||||| || |||||||| |||| |||||||||||||||||| || ||||||||
gtatgattttgttcaagaatctctctattttttatgctaaatttgcagcttgcatc--tattg-tttccacagctttctttatttg----tttgctctattgacagATGTTCCTGAAGGATCTTTTATTGTGAGAGCACACACTCCAATGTCAAACTTGTTCTCCTGCCTTTGGTTCAATGAAGTTGATCGATTTACTCCTCGTGA

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|32804682|gb|CD956918.1|CD956918
EST:     GATCCCAGCAGGCTTCTACCAAGCT                         ATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCAATGTCCAACT
genomic: GATCCCAGCAGGCTTCTACCAAGCTgtatgctctg ... ctttctacagATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACT
EST: gi|32804547|gb|CD956783.1|CD956783
EST:     GATCCCAGCAGGCTTCTACCAAGCT                         ATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACT
genomic: GATCCCAGCAGGCTTCTACCAAGCTgtatgctctg ... ctttctacagATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattaatactactttactgagttctattgacctaacaattcaaactttctacagATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACTTATTTTCCTGCCTGTGGTACAATGAAGTTGATCGATTCACACCTCGTGA
                              acctaac  putative branch site (score: 2)
                                             ctttctac  putative PPT
                                 taacaatt  TA-rich tract