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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtacagttgtactagactgcactaaaccatttggatgcatgtaaatttgcttgatcacaattcctatgatgttttacttaattagacaatggtatcataaaatcctaacctgaaatccactacactgatctgtgcaagcaaaatatcggtaattcacgtatcgtgactctcgtctcaccaatttctgcagCTTGAAGTCACGTTCCAAAGGAGCTTGCAAGCTGTAAGAATTATGGTACGGGAAGGATTCAACAAAAGTGCACAGTTTGTGAATACTCCACAGCCACCAG

Basic information

species Zea mays
transcript GRMZM2G179793_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179793_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g47630.1 (Oryza sativa), 3'ss of exon 7
gtttgtacagttgtactagactgcactaaaccatttggatgcatgtaaatttgcttgatcacaattcctatgat-gttttacttaattagacaatgg--tatcataaaatcctaacctgaaatccac--tacactgatctgtgcaagcaaaatatcggtaattcacgtatcgtgactctcgtctcaccaatttctgcagCTTGAAGTCACGTTCCAAAGGAGCTTGCAAGCTGTAAGAATTATGGTACGGGAAGGATTCAACAAAAGTGCACAGTTTGTGAATACTCCACAGCCACCAG
          ||||| | | |||||  |     |||  |||| || |  |||   ||    | || ||||||||   ||  |||||  ||    |||  |   | ||  |   || ||||||  |||  |||| ||||| || ||  || || |                  | || ||  | || |||  |  |||||||| |  | ||| || | |||||||||||||| ||||| || ||| |||  ||||||||||||||  |||||   |||||||| |||||||||||| |||
--------gtttgtatttgtctgcagaa-----tttttatgcctggacttttatgtgtgtgctat-cctatgatcacttctcttaagcagcatgtggcttgcaacaacttgaaaagctgaaacacacactacattgatccgtacatacagaacaagaac-------------taaccct--tttccccatgtattgcagCTTAATTTGACGATCAATAGGAGCTTGCAAGCAGTAAGGATAATGCTACTCGAAGGATTCAACAAGGGTGCAACTTTTGTGAACACTCCACAGCCATCAG
















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|18661101|gb|BM501210.1|BM501210
EST:     GTGCTATCAATTTTGTTCTGCGGTCATTCACCAAGCAGGAAAAGGAAGAG                         CTTGAAGTCACGTTCCAAAGGAGCTTGCAAGCTGTAAGAATTAT
genomic: GTGCTATCAATTTTGTTCTGCGGTCATTCACCAAGCAGGAAAAGGAAGAGgtttgtacag ... atttctgcagCTTGAAGTCACGTTCCAAAGGAGCTTGCAAGCTGTAAGAATTAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagcaaaatatcggtaattcacgtatcgtgactctcgtctcaccaatttctgcagCTTGAAGTCACGTTCCAAAGGAGCTTGCAAGCTGTAAGAATTATGGTACGGGAAGGATTCAACAAAAGTGCACAGTTTGTGAATACTCCACAGCCACCAG
                                    gtctcac  putative branch site (score: 3)
                                              tttctgc  putative PPT
     aaatat  TA-rich tract