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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatggttgcaaaagttgaatggcatgtatacagttaatccctgtctatttgcatactaacatgagcaaactaaatgagaatccataatggatgatgcagGGGAGACGTTTAAGGATCTTGTGGGAAGTGCATATTATGTTGCTCCTGAGGTACTGAAACGGAAATATGGGGCAGAGGCTGACATATGGAGTGCTGGGGT

Basic information

species Zea mays
transcript GRMZM2G025387_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025387_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g43410.1 (Oryza sativa), 3'ss of exon 1
aaatggttgcaaaagttgaatggcatgtatacagttaatccctgtctatttgcat--actaacatgagcaaactaaatgagaat--ccataatggatgatgcagGGGAGACGTTTAAGGATCTTGTGGGAAGTGCATATTATGTTGCTCCTGAGGTACTGAAACGGAAATATGGGGCAGAGGCTGACATATGGAGTGCTGGGGT
       |  | ||  |       |  ||  || |    |   ||  |     |   | |  | |    |   ||||||| |||  | ||  |||||| ||||||||||   |||||||| ||||| |||||||| ||||||||||| |||||||| |||||||| || ||||| |||||||||||||||||||||||||| ||
----tcctatagaacctatcactaaaatactcaataggactaagtggaacgaaaaggattttccttgagatggtaaatgaaaatgcctattgtggatgttgcagGGGAGCATTTTAAGGACCTTGTTGGAAGTGCGTATTATGTTGCACCTGAGGTGCTGAAACGAAACTATGGAGCAGAGGCTGACATATGGAGTGCTGGCGT

upper sequence: GRMZM2G025387_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA11G02260.1 (Glycine max), 3'ss of exon 1
aaatggttgcaaaagttgaatggcat-gtatacagttaatccctgtctatttgcatactaacatgagcaaactaaatgagaatccataatggatgatgcagGGGAGACGTTTAAGGATCTTGTGGGAAGTGCATATTATGTTGCTCCTGAGGTACTGAAACGGAAATATGGGGCAGAGGCTGACATATGGAGTGCTGGGGT
             ||||   |  | |   || |   |  |  ||||||  | |  | ||  |  |      || || ||    ||||  |        |||| ||   ||||||||||||||| || ||||| || ||||||||||||||||| |||    | |  |||||  | |  ||||| || ||||||||||| ||
----------gttagttccgtttcgttaaattcgccttgttactgtctgct-gtgtgctgtctcggtt---ctcaacgaa---ccatttt---cagaacagGCGATGTGTTTAAGGATCTTGTCGGGAGTGCGTACTATGTTGCTCCTGAGGTGCTGCGCAGAAGCTATGGACCCGGAGCTGATATTTGGAGTGCTGGCGT

upper sequence: GRMZM2G025387_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT4G23650.1 (Arabidopsis thaliana), 3'ss of exon 2
aaatggttgcaaaagttgaatggcatgtatacagttaatccctgtctatttgcatacta-acatgagcaaactaaatgagaatccataatggatgatgcagGGGAGACGTTTAAGGATCTTGTGGGAAGTGCATATTATGTTGCTCCTGAGGTACTGAAACGGAAATATGGGGCAGAGGCTGACATATGGAGTGCTGGGGT
                      |  || | |   |  |||| |  |||||||  | ||| | |  |   | |    | |  |     |     | ||||||| || | ||||||||||||||| ||||||||||| |||||||| || || || || |||||||| |||||  |||||||||| || ||||||||||| ||
----------------------gtttgaacagcctctatccttccctatttgatttctatagacaatttatccctctaatgaagttgatccattaatgcagGTGATAAGTTTAAGGATCTTGTTGGAAGTGCATACTATGTTGCCCCAGAAGTTCTAAAACGGAACTATGGACCAGAGGCTGATATCTGGAGTGCTGGTGT

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|9824945|gb|BE575042.1|BE575042
EST:     CTCCCCGCTCAAGGCCACGGACTTCGGTCTCTCCGTCTTCTTCAAGCACG                         GGGAGACGTTTAAGGATCTTGTGGGAAGTGCATATTATGTTGCTCCTGAGG
genomic: CTCCCCGCTCAAGGCCACGGACTTCGGTCTCTCCGTCTTCTTCAAGCACGgtgagtgctt ... gatgatgcagGGGAGACGTTTAAGGATCTTGTGGGAAGTGCATATTATGTTGCTCCTGAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatttgcatactaacatgagcaaactaaatgagaatccataatggatgatgcagGGGAGACGTTTAAGGATCTTGTGGGAAGTGCATATTATGTTGCTCCTGAGGTACTGAAACGGAAATATGGGGCAGAGGCTGACATATGGAGTGCTGGGGT
                      aaactaaat  TA-rich tract