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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtaactagtattcataatgttggctgtgtttgaaacagccattaatattttttatgcatccttatttttttttgtgtttggccatttttttcgtcttcagGTGTTTGATGCTATAACTGCTAGTCAACAAGAATCAGGCACATTGAGTGTTGATTTTTTTAGGAATCATGCATCTCCCTCTTGGAAAACTGATGATCTAG

Basic information

species Zea mays
transcript GRMZM2G386971_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G386971_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g36190.1 (Oryza sativa), 3'ss of exon 3
gtaactagtattcataatgttggctgtgtttgaaacagccattaatattttttatgcatcctt-atttttttttgtgtttggccattt-------ttttcgtcttcagGTGTTTGATGCTATAACTGCTAGTCAACAAGAATCAGGCACATTGAGTGTTGATTTTTTTAGGAATCATGCATCTCCCTCTTGGAAAACTGATGATCTAG
     ||  ||  |   ||||   ||  |  ||||| | |||   |  ||   | | |||||  |||||| | ||  ||| | | | |       |||| |||| ||| || | |||||| || || |||||||||||||| ||||||| ||||||||||||||||| || || | ||||||||||||||||||||||||||||||||
----ttaccatctac--tgttatttgcataggaaactgtcatc--ttgttcagaagtatcctcgatttttctgtgcttttagtcttatgcataccttttggtctccagATGATCGATGCTTTAGCTTCTAGTCAACAAGAAGCAGGCACTTTGAGTGTTGATTTTTTCAGAAAACGTGCATCTCCCTCTTGGAAAACTGATGATCTAG

upper sequence: GRMZM2G386971_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g36180.1 (Oryza sativa), 3'ss of exon 4
gtaactagtattcataatgttggctgtgtttgaaacagcc-----attaatattttttatgcatccttatttttttttgtgtttggccat-ttttttcgtcttcagGTGTTTGATGCTATAACTGCTAGTCAACAAGAATCAGGCACATTGAGTGTTGATTTTTTTAGGAATCATGCATCTCCCTCTTGGAAAACTGATGATCTAG
     ||  ||  |   ||||   ||  |  ||||| | |      || | |  | |  |  ||  || | || ||||    ||   |||   || | |||| ||| ||||||||||| || || |||||||||||||| ||||  | ||||||||||||||||| |  || | ||||||||||||||||||||||||||||||||
----ttaccatctac--tgttatttgcataagaaactgtcttcttgttcagaagtatcctcaatttttctgttcttttagtcttatacatgccttctggtctccagATGTTTGATGCTTTAGCTTCTAGTCAACAAGAAGCAGGTGCTTTGAGTGTTGATTTTTTCATAAAACGTGCATCTCCCTCTTGGAAAACTGATGATCTAG
















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|71428873|gb|DR809923.1|DR809923
EST:     GAAGCAGCAGCAATGAAGAACCTCAAATCTATTTTGCCTAAGGAG                         GTGTTTGATGCTATAACTGCTAGTCAACAAGAATCAGGCACATTGAGTGTT
genomic: GAAGCAGCAGCAATGAAGAACCTCAAATCTATTTTGCCTAAGGAGgtcagaacgt ... tcgtcttcagGTGTTTGATGCTATAACTGCTAGTCAACAAGAATCAGGCACATTGAGTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttttatgcatccttatttttttttgtgtttggccatttttttcgtcttcagGTGTTTGATGCTATAACTGCTAGTCAACAAGAATCAGGCACATTGAGTGTTGATTTTTTTAGGAATCATGCATCTCCCTCTTGGAAAACTGATGATCTAG
                                    ccatttttttcgtctt  CT-rich tract
                ttatttttttttgtgt  TA-rich tract