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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaaatctctgccacactgatatatctatatcattaatcagttttattatcagtttatttctgctaactgccatattacgatttacactgcattcatattttctctgcttgaagtacatgtaagttatacggaacaccctgtcacattttttttttctaatttatgtctttgtgcagTAAATGGGTTATGATGAACAAACTCACTAGGAAGCTTGCAAGAATTCCAGATGAAGTGCGGACTGAAATAGAGCCATACTTTTTTGAGCATTCTGCTATT

Basic information

species Zea mays
transcript GRMZM2G406603_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G406603_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g39520.2 (Oryza sativa), 3'ss of exon 4
gttgaaatctctgccacactgatatatctatatcatt----aatcagttttattatcagtttatt--tctgctaactgccatattacga---tttacac-tgcattc---atattttctctgcttgaagtacat-gtaagttatacgg-aacaccctgtcac-attttttttttctaatttatgtctt--tgtgcagTAAATGGGTTATGATGAACAAACTCACTAGGAAGCTTGCAAGAATTCCAGATGAAGTGCGGACTGAAATAGAGCCATACTTTTTTGAGCATTCTGCTATT
|||  |||   || ||| || ||| ||    || ||     || | || |||  ||| | |  |     | ||| |   | |||||| |   ||| ||  || | ||   |  || | | |  |   |  | ||  |||| |       | || | ||   | |  | ||| | ||||||  |  ||   ||||||||||||||||||||||| |||| || || |||| ||| ||||||||||| |||||||| || |||||||||||||||||||||||||||||| || |||||
gtttgaattattgtcactctcataaatactgatgatcatgaaaactgtattagcatctgctattcaacttcctacccatcttattaccactgtttgcatatgaagtctagaagttctgtttcttctgaacatattataagctgccttacagcaacatgaagctacctatttgtcctaattgtttgctcaatgtgcagTAAATGGGTTATGATGCACAAGCTTACAAGGAGGCTAGCAAGAATTCCTGATGAAGTACGTACTGAAATAGAGCCATACTTTTTTGAGCATGCTTCTATT
















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|32869619|gb|CF009301.1|CF009301
EST:     TGGCATATACGCGATCCTATAACAGGCCTCACGATACTGAAGGCAACAAG                         TAAATGGGTTATGATGAACAAACTCACTAGGAAGCTTGCAAGAATTCCAGA
genomic: TGGCATATACGCGATCCTATAACAGGCCTCACGATACTGAAGGCAACAAGgttgaaatct ... ctttgtgcagTAAATGGGTTATGATGAACAAACTCACTAGGAAGCTTGCAAGAATTCCAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttatacggaacaccctgtcacattttttttttctaatttatgtctttgtgcagTAAATGGGTTATGATGAACAAACTCACTAGGAAGCTTGCAAGAATTCCAGATGAAGTGCGGACTGAAATAGAGCCATACTTTTTTGAGCATTCTGCTATT
                                ttctaat  putative branch site (score: 2)
                                          tgtcttt  putative PPT
                     acattttttttttcta  TA-rich tract