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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTCGGAGACTCCTTCAAGCAGGGCACCTACGTCGTGCAGTCTAAGCTCGGATGGGGCCACTTCTCCACCGTCTGGCTTGCCTGGGACGAAGCCCATTCCgtacgtaatctaacatctcgagatatcttcgtgttcaattccaatgattcgtgttgtcgatctggatgcggtttatcctgttcgctgctgctgtttgcct...

Basic information

species Zea mays
transcript GRMZM2G009843_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009843_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g53720.2 (Oryza sativa), 5'ss of exon 1
CGTCGGAGACTCCTTCAAGCAGGGCACCTACGTCGTGCAGTCTAAGCTCGGATGGGGCCACTTCTCCACCGTCTGGCTTGCCTGGGACGAAGCCCATTCCgtacgtaatctaacatctcgagatatcttcgtgttcaattccaatgattcgtgttgtcgatctggatgcggtttatcctgttcgctgc-tgctg-tttgcct
|||||| ||||| |||||||||||| |||||||||||||||| ||||||||||||||||||||||||||||||||||| |||||||||   | ||| ||||| |||  || ||   ||   |    |  |     |  ||  | |   |||||   | |   |     |  |||  | |  | | | | || || ||||   
CGTCGGGGACTCGTTCAAGCAGGGCGCCTACGTCGTGCAGTCCAAGCTCGGATGGGGCCACTTCTCCACCGTCTGGCTCGCCTGGGACACCGGCCACTCCgtgcgt--tcgaatcccttttgccccccccccccccccttaaatttcctcgtggaatgggcgttccccccttttcccttcctagattcgtgatgatttgtgg

upper sequence: GRMZM2G009843_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA12G08900.1 (Glycine max), 5'ss of exon 1
CGTCGGAGACTCCTTCAAGCAGGGCACCTACGTCGTGCAGTCTAAGCTCGGATGGGGCCACTTCTCCACCGTCTGGCTTGCCTGGGACGAAGCCCATTCCgtac-gtaatctaacatctcgagatatcttcgtgttcaattccaatgattcgtgttgtcgatctggatgcggtttatcctgttcgctgctgctgtttgcct--
 ||||| ||| | |||||  | |||   ||| |||||||||| || ||||| |||||||| || |||||||||||||| || ||||||     | |||| || | |  || |  || | |        || || ||   ||  |  ||    |||| |   | |   |   |||     ||| || ||  | || | |  |  
AGTCGGCGACGCTTTCAACAATGGCCGTTACATCGTGCAGTCCAAACTCGGTTGGGGCCATTTTTCCACCGTCTGGCTCGCTTGGGACACTCTCAATTCGgtgccgccatttttcaacacttttctgttttgtcttt--ttttatcgacaaatgttattt-tgttagttttgttagaattgtccgttggagttggtggattcg

upper sequence: GRMZM2G009843_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv08s0007g04220.t01 (Vitis vinifera), 5'ss of exon 1
CGTCGGAGACTCCTTCAAGCAGGGCACCTACGTCGTGCAGTCTAAGCTCGGATGGGGCCACTTCTCCACCGTCTGGCTTGCCTGGGACGAAGCCCATTCCgtacgtaatctaacatctcgagatatcttcgtgttcaatt--ccaatgattcgtg-ttgtcgatctggatgcggtttatc-ctgttcgctgctgctgtttgcct
  |||| ||| |||||||| | ||    ||| |||| ||  | ||||||||||||||||| ||||| || ||||||||||| ||||||       | ||||||||    |   ||| ||    | |||| ||||  | ||  |  ||||    |  || |   | |  |||    || |   ||   |    |  | |||  | 
AATCGGCGACACCTTCAAGAACGGTCGGTACATCGTTCAAACCAAGCTCGGATGGGGCCATTTCTCAACTGTCTGGCTTGCTTGGGACACCTTAAACTCCgtacgcctcccgccatttc----tctctttgtgtgtattttacggatgacaaataattattattttctatgaatgttgtgattgggagtgattaatttttaaca

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|211349638|gb|FL220807.1|FL220807
EST:     GATGGGGCCACTTCTCCACCGTCTGGCTTGCCTGGGACAAAGCCCATTCC                         AGATATGTGGCGCTGAAGGTGCAGAAGAGCGCCCAACACTACACAGAAGCA
genomic: GATGGGGCCACTTCTCCACCGTCTGGCTTGCCTGGGACGAAGCCCATTCCgtacgtaatc ... ctctgtacagAGATATGTGGCGCTGAAGGTGCAGAAGAGCGCCCAACACTACACAGAAGCA
EST: gi|211349639|gb|FL220808.1|FL220808
EST:     GATGGGGCCACTTCTCCACCGTCTGGCTTGCCTGGGACAAAGCCCATTCC                         AGATATGTGGCGCTGAAGGTGCAGAAGAGCGCCCAACACTACACAGAAGCA
genomic: GATGGGGCCACTTCTCCACCGTCTGGCTTGCCTGGGACGAAGCCCATTCCgtacgtaatc ... ctctgtacagAGATATGTGGCGCTGAAGGTGCAGAAGAGCGCCCAACACTACACAGAAGCA