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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagattgggcacgaatgctaatacacaatgggtttgatttttggagcatccaagttttttttagtgtttctcctaacacgggtgaccactggtatcgcagGGTTGTAATCTCCACATCACATCAGTGGGGAGCAGAGCTCACGAAACTGAACGTGCCTGCCGACTGGAAAGGTTTGTTCAGGCAAATACCGTTTGGTCCT

Basic information

species Zea mays
transcript GRMZM2G158489_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158489_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g09000.1 (Oryza sativa), 3'ss of exon 8
tagattgggcacgaatgctaatacacaatgggtttgatttttggagcatcca-agttttttttagtgtttctcctaacacgggtgaccactggtatcgcagGGTTGTAATCTCCACATCACATCAGTGGGGAGCAGAGCTCACGAAACTGAACGTGCCTGCCGACTGGAAAGGTTTGTTCAGGCAAATACCGTTTGGTCCT
|  |           |  ||| ||  ||||   |    || |  |   |||  ||  | | || || | | |  ||||| |  || |  ||| || |||||||  |||||||||||||| ||||| |||||||||||||| || || ||||| || ||||| ||||||||||                             
tgcaagaaatgtttctcttaaaactaaatgacctgtccttctccaatttccggagcatctctttgtttatgttataacatga-tgcctgctgataccgcagGGCCGTAATCTCCACATCGCATCAATGGGGAGCAGAGCTGACAAAGCTGAATGTCCCTGCTGACTGGAAAG-----------------------------
















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|211113488|gb|FL470160.1|FL470160
EST:     GTCCATCTTGGCTCCCCAGTCACCTCCATTGAATTTTGTCCTAGTGAAAGG                         GGTTGTAATCTCCACATCACATCAGTGGGGAGCAGAGCTCACGAAACTGA
genomic: GTCCATCTTGGCTCCCCAGTCACCTCCATTGAATTTTGTCCTAGTGAAA-Ggtaactacag ... ggtatcgcagGGTTGTAATCTCCACATCACATCAGTGGGGAGCAGAGCTCACGAAACTGA
EST: gi|211113486|gb|FL470158.1|FL470158
EST:     CCATTG-ATTTTGTCCTAGTGAAAG                         GGTTGTAATCTCCACATCACATCAGTGGGGAGCAGAGCTCACGAAACTGAA
genomic: CCATTGAATTTTGTCCTAGTGAAAGgtaactacag ... ggtatcgcagGGTTGTAATCTCCACATCACATCAGTGGGGAGCAGAGCTCACGAAACTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatccaagttttttttagtgtttctcctaacacgggtgaccactggtatcgcagGGTTGTAATCTCCACATCACATCAGTGGGGAGCAGAGCTCACGAAACTGAACGTGCCTGCCGACTGGAAAGGTTTGTTCAGGCAAATACCGTTTGGTCCT
                         tcctaac  putative branch site (score: 1)
         ttttttttagtgttt  TA-rich tract