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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtcgaacaatcggatcatcgtcagcgagtgttagttatccgagctagctaggtgacgaccccgcgctgacctcatcagCTGGCATGGTGATCGGTGGTTGCAGAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACCGCAAGTACCCGAATGGCTCCAGGC

Basic information

species Zea mays
transcript GRMZM2G123667_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123667_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g08210.1 (Oryza sativa), 3'ss of exon 1
gtacgtcgaacaatcggatcatcgtcagcgagtgttagtt-atccgagctagctaggtgacgaccccgcgctgacctcatcagCTGGCATGGTGATCGGTGGTTGCAGAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACCGCAAGTACCCGAATGGCTCCAGGC-------------------------
                  | | |   ||| |  |    |  |  |||       |  |      |     |  |    || |  |||     ||     | |||||||||| |||| | || |||||||||||||||||||||||||||||||| ||||| ||||||||||| ||     |||                         
-----------------gtaagcaagagcaaaagcagatcgaatcgaatcgaggaaattgaagtcgaattcaaattcaattaattggggatttgg--aattgttgcagAGAGGGCGATGGGAGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGGGACCGGAAGTACCCGAACGGGCAGCGGCCGAACAGGGCGGCGGGGACGGGGTA
















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|76284443|gb|DV024011.1|DV024011
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         CTGGCATGGTGATCGGTGGTTGCAGAGAAGGCGTTCGGTGGGGAGAAGGAG
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... acctcatcagCTGGCATGGTGATCGGTGGTTGCAGAGAAGGCGTTCGGTGGGGAGAAGGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgagtgttagttatccgagctagctaggtgacgaccccgcgctgacctcatcagCTGGCATGGTGATCGGTGGTTGCAGAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACCGCAAGTACCCGAATGGCTCCAGGC
                                        cgctgac  putative branch site (score: 3)
                                              cctcatc  CT-rich tract
       ttagttat  TA-rich tract