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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatatatcaatatttatatttttgagaagcctagggataactcccttatcccgctatttaaaacactgctaacagctgaatatgactgcttttcattcagGCGACACCGCTGGGTGAATGGATCTTCAAGAGCAAGAGCAAGCAAAATAGTTGCGGTCTGCAAGGGGCATGCAAGGGCTTCATGTTCGGACTACAGGTCA

Basic information

species Zea mays
transcript GRMZM2G057963_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057963_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g32750.1 (Oryza sativa), 3'ss of exon 4
tatatatcaatatttatatttttgagaagcctagggataactcccttatcccgctatttaaaacactgctaacagctgaatatg-actgcttttcattcagGCGACACCGCTGGGTGAATGGATCTTCAAGAGCAAGAGCAAGCAAAATAGTTGCGGTCTGCAAGGGGCATGCAAGGGCTTCATGTTCGGACTACAGGTCA
   | |     |   | ||  || |||    ||       |     || |     |   |  |  |    | | |   ||  ||  |||   || ||||||| |||||| ||||| ||||||||||||||||||||||||||||| || || || || ||||||||||| |||||||||| |||||| |  || ||||| |
-tcaaagtttcaagcacatcattcagatatgtaaaagattcaggagtagcatagaacagagtaaccaatcagctgacaaagttgtgctgaaattaattcagGGGACACCACTGGGAGAATGGATCTTCAAGAGCAAGAGCAAGCAGAACAGCTGTGGCCTGCAAGGGGCCTGCAAGGGCTACATGTTTGCTCTCCAGGTGA
















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|74233575|gb|DT641489.1|DT641489
EST:     CTGCCAGCAGGGAGGCCTTCGAGGAAGCAGGCGTCAAGGGCATTATCAGC                         GCGACACCGCTGGGTGAATGGATCTTCAAGAGCAAGAGCAAGCAAAATAGT
genomic: CTGCCAGCAGGGAGGCCTTCGAGGAAGCAGGCGTCAAGGGCATTATCAGCgtgggtgcct ... tttcattcagGCGACACCGCTGGGTGAATGGATCTTCAAGAGCAAGAGCAAGCAAAATAGT
EST: gi|78075588|gb|DV504022.1|DV504022
EST:     CTGCCAGCAGGGAGGCCTTCGAGGAAGCAGGCGTCAAGGGCATTATCAGC                         GCGACACCGCTGGGTGAATGGATCTTCAAGAGCAAGAGCAAGCAAAATAGT
genomic: CTGCCAGCAGGGAGGCCTTCGAGGAAGCAGGCGTCAAGGGCATTATCAGCgtgggtgcct ... tttcattcagGCGACACCGCTGGGTGAATGGATCTTCAAGAGCAAGAGCAAGCAAAATAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcccgctatttaaaacactgctaacagctgaatatgactgcttttcattcagGCGACACCGCTGGGTGAATGGATCTTCAAGAGCAAGAGCAAGCAAAATAGTTGCGGTCTGCAAGGGGCATGCAAGGGCTTCATGTTCGGACTACAGGTCA
                     tgctaac  putative branch site (score: 1)
                                           cttttcattc  putative PPT
         tatttaaaaca  TA-rich tract