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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGGCGCAGGAGCAGCAGGCCAACGGCAACGGCGAGCAGAAGACGCGGCACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAGgtaaacactccgatcctgcctgcccatttccggcctcgcgctctagatcttatcttccgtgactcgaatctgaccgggggaagaatcacttccaccag

Basic information

species Zea mays
transcript GRMZM2G127948_T04
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G127948_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g06980.2 (Oryza sativa), 5'ss of exon 1
GCCGGCGCAGGAGCAGCAGGCCAACGGCAACGGCGAGCAGAAGACGCGGCACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAGgtaaacactccgatcctgcctgcccatttccg-------gcctcgcgctctagatcttatcttccgtgactcgaatctgaccgggggaagaatcacttccaccag
| || || || ||  | | |  | | ||  |||||||||||||||||||||||| |||||||||||||||||||| |||||||||||||| ||||||||||||| |   |   ||| |||  ||| |   ||        ||||   | |     || | ||| | ||||| |   |||||  || |     ||  |||| |   
GACGACGGAGCAGGCGAATGGGAGCAGCGGCGGCGAGCAGAAGACGCGGCACTCGGAGGTCGGCCACAAGAGCCTCCTCAAGAGCGACGATCTCTACCAGgtaacccgccgtctccggccatcccctcctcgccggaaaacctccgccgccgtggctgaccttgcctgactgg---ctgactcggtgct---tcgtttccgcag-

upper sequence: GRMZM2G127948_T04 (Zea mays), 5'ss of exon 3
lower sequence: EFJ35623 (Selaginella moellendorffii), 5'ss of exon 1
GCCGGCGCAGGAGCAGCAGGCCAACGGCAACGGCGAGCAGAAGACGCG-GCACTCCGAGGTC--GGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAGgtaaacactccgatcctgcctgcccatttccggcctcgcgctctagatcttatcttccgtgactcgaatctgaccgggggaagaatcacttccaccag
    ||  | | |       | || ||||| |   || |  |  |  |   || || |  ||  |||||||||||||| |||||||||||||  ||||| ||||||     ||| |   |      |||  |   ||   |  |||||||| ||  || |  |||| |                                 
---TGCAAACGGGAGTTCTTCTAATGGCAAAGCAAAGGAAGAAGCTAGCAAACACCAAACTCTTGGCCACAAGAGCCTCCTCAAGAGCGACGCTCTCTATCAGgtac---ttccaagttt------ccaaat---gctctgatctctagatttt--ctccattgacgcag-------------------------------
















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|50324343|gb|CO519469.1|CO519469
EST:     ACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAG                         TACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAG
genomic: ACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAGgtaaacactc ... cttccaccagTACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAG
EST: gi|29544906|gb|CB605514.1|CB605514
EST:     ACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAG                         TACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGATGT-TGTAGGA
genomic: ACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAGgtaaacactc ... cttccaccagTACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGA-GCATGAAGGA
EST: gi|9952456|gb|BE639039.1|BE639039
EST:     ACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAG                         TACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAG
genomic: ACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAGgtaaacactc ... cttccaccagTACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAG