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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctactggtgattagctacggttgattgatgcctttctgtttttgcttcaaagaacattaagttttgtttattgaaccaaaatttcacattttgtcacagCTATATACTTCTTCCTCAAAGTTGAGTGGTGAAAATACAAGTTCAGACGAGGCTTCTGATTCTGAAACATTTATGGCTCCACACGTTCTTGCGATGTCAG

Basic information

species Zea mays
transcript GRMZM2G315176_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G315176_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g48100.1 (Oryza sativa), 3'ss of exon 3
cctactggtgattagctacggttgattgatgcctttct-gtttttgcttcaaag--aacat---taagttttgtttattgaaccaaaatttcacattttgtcacagCTATATACTTCTTCCTCAAAGTTGAGTGGTGAAAATACAAGTTCAGACGAGGCTTCTGATTCTGAAACATTTATGGCTCCACACGTTCTTGCGATGTCAG
            | | | |   | ||| ||| ||||||  |||| | ||||||   |||||   |||  ||||||| || |  |||| |    |  ||  | ||||||||||||  ||||| | || | ||||| |||  ||||||  |||||||||  ||| | |||||||| |||||||||||| || |||||||| ||||| |
----tccaaacctcgttgca--taattcatgtctttcttattttggtttcaaatttaacatagttaacatttgtttgttaatacaaattactgccattcattacagCTATATACCCCTTCCACGAAATCGAGTGATGATGATACAATCTCAGACGAGAATTCCGCTTCTGAAATATTTATGGCTCCCCATGTTCTTGCTATGTCCG
















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|31355026|gb|CD439383.1|CD439383
EST:     ATGAACAGCAGCGCTTTGGAGTTGTACAGAGAGGCAGGTTTAACAGTAAG                         CTATATACNNNNNNNNCAAAGTTGAGTGGNGAAAATACAAGTTCAGACGAG
genomic: ATGAACAGCAGCGCTTTGGAGTTGTACAGAGAGGCAGGTTTAACAGTAAGgtaaattgct ... tttgtcacagCTATATACTTCTTCCTCAAAGTTGAGTGGTGAAAATACAAGTTCAGACGAG
EST: gi|31351705|gb|CD436062.1|CD436062
EST:     ATGAACAGCAGCGCTTTGGAGTTGTACAGAGAGGCAGGTTTAACAGTAAG                         CTATATACTTCTTCCTCAAAGTTGAGTGGTGAAAATACAAGTTCAGACGAG
genomic: ATGAACAGCAGCGCTTTGGAGTTGTACAGAGAGGCAGGTTTAACAGTAAGgtaaattgct ... tttgtcacagCTATATACTTCTTCCTCAAAGTTGAGTGGTGAAAATACAAGTTCAGACGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcaaagaacattaagttttgtttattgaaccaaaatttcacattttgtcacagCTATATACTTCTTCCTCAAAGTTGAGTGGTGAAAATACAAGTTCAGACGAGGCTTCTGATTCTGAAACATTTATGGCTCCACACGTTCTTGCGATGTCAG
                                            ttttgtc  CT-rich tract
           attaagttttgtttat  TA-rich tract