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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtatggtaatttttaaatcatagatattggatataaccacatctattgtaatatccagcaatatgattctaatcatttattcattttttcatttgtcaagGTCACATGCTGTACTTGAGATTACCGTAAAGCGAAAGCAGAAAGGCCAATATGGTAACCAAGTTCTTCGTGGAAAGCTTGCCTTGGTTGATCTTGCGGGC

Basic information

species Zea mays
transcript GRMZM5G837018_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G837018_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g56260.1 (Oryza sativa), 3'ss of exon 7
gtatggtaatttttaaatcatagatattggatataaccacatctattgtaatatccagcaatatgattctaatca--tttattcattttttcatttgtcaagGTCACATGCTGTACTTGAGATTACCGTAAAGCGAAAGCAGAAAGGCCAATATGGTAACCAAGTTCTTCGTGGAAAGCTTGCCTTGGTTGATCTTGCGGGC
 |  | |  | |||  |  | ||| |   | | ||        |  || |        | | ||  |  |||| |  ||||| | ||||||       |||||||||||||||| || ||||| || || |||||||| || ||||| ||||||||||  || |||||||||||||||||||| |||||||| |||||||||
-tgagattttgtttctacga-agacagctgctgtaggacgtagtgctggacatctttactacattctattaataagatttatcctttttttttaaatccaagGTCACATGCTGTCCTGGAGATAACTGTGAAGCGAAAACAAAAAGGACAATATGGTAGTCAGGTTCTTCGTGGAAAGCTTGCGTTGGTTGACCTTGCGGGC
















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|22490695|gb|BU050618.1|BU050618
EST:     AACAGTAGGCGCAAGACAGAGAGTACAGAAGCAAATGCTACTTCTTCACG                         GTCACATGCTGTACTTGAGATTACCGTAAAGCGAAAGCAGAAAGGCCAATA
genomic: AACAGTAGGCGCAAGACAGAGAGTACAGAAGCAAATGCTACTTCTTCACGgtaatttaac ... atttgtcaagGTCACATGCTGTACTTGAGATTACCGTAAAGCGAAAGCAGAAAGGCCAATA
EST: gi|87152314|gb|DY397103.1|DY397103
EST:     AACAGTAGGCGCAAGACAGAGAGTACAGAAGCAAATGCTACTTCTTCACG                         GTCACATGCTGTACTTGAGATTACCGTAAAGCGAAAGCAGAAAGGCCAATA
genomic: AACAGTAGGCGCAAGACAGAGAGTACAGAAGCAAATGCTACTTCTTCACGgtaatttaac ... atttgtcaagGTCACATGCTGTACTTGAGATTACCGTAAAGCGAAAGCAGAAAGGCCAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtaatatccagcaatatgattctaatcatttattcattttttcatttgtcaagGTCACATGCTGTACTTGAGATTACCGTAAAGCGAAAGCAGAAAGGCCAATATGGTAACCAAGTTCTTCGTGGAAAGCTTGCCTTGGTTGATCTTGCGGGC
                     ttctaat  putative branch site (score: 2)
                                  ttcattttttcattt  putative PPT
              aatatgattctaatca  TA-rich tract