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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgttcaaatgagcttgagcttctctttcatggttctgttacttagttgttcagtattcatgcacgtgattatcctccctgcagGACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG

Basic information

species Zea mays
transcript GRMZM2G143356_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G143356_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os04g55940.1 (Oryza sativa), 3'ss of exon 8
gtaagtgttcaaatgagcttgagctt----ctctttcatggttctgttacttagttgttcagtattcatgcacgtgattatcctcc--ctgcagGACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG
|||||  || | ||| |||     ||     |  ||  || ||||  |  ||   |  | | | |   || || ||||| |    |  ||||||||||||||||| |||||||||||||| |||||||| ||||||||||||||||||
gtaagcatttagatgtgctcagttttgatgtttctttctgattcttctg-ttgtctcctaactgtctgtgtacatgattgtttctctgctgcagGACATAACACTGGGTGTTGCAATTGGGTCATCAACGCAGATATCAATGTTTGTG

upper sequence: GRMZM2G143356_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv09s0018g01840.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtgttcaaatgagcttgagcttctctttcatggttctgttacttagttgttcagtattcatgcacgtgattatcctccctgcagGACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG
|| |||| | | | ||     |     |  ||  |  | ||  |  ||| || | | | ||| |   || |           ||  ||||||| ||| | || ||||||||||||||||| ||||| ||| |||||||||||
gtgagtgcttagaagaatgcaaatggttggttttttttgcttatg-ttaattctgctg-attgacctacat-------tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTTGTG
















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|86474171|gb|DY240541.1|DY240541
EST:     TGAACATGCAAGCGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
genomic: TGAACATGCAAGCGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... ctccctgcagGACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
EST: gi|211410157|gb|FL246131.1|FL246131
EST:     ATGCAGCTGAACATGCAAGCGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATG
genomic: ATGCAGCTGAACATGCAAGCGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... ctccctgcagGACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggttctgttacttagttgttcagtattcatgcacgtgattatcctccctgcagGACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG
                                        ttatcctccct  CT-rich tract
         ttactta  TA-rich tract