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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcggtcattttccactacacttaactcactaaaacaaaaacaaaaaaacttcatatatattctgctaaaacaaaactgttccttcattttcttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATGTCATACCACACCCACGTTCCAAT

Basic information

species Zea mays
transcript GRMZM2G100652_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G100652_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g01030.1 (Oryza sativa), 3'ss of exon 3
gtcggtcattttccactacacttaactcactaaaacaaaaacaaaaaaacttcatatatattctgctaaaacaaaactgttccttcattttcttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATGTCATACCACACCCACGTTCCAAT
                      || | ||  |   | |  |||  || ||||    |   || |  ||   ||    |    |||   ||||  |    |||||||| || || || || || ||||||||||||||||||||||| |||||||| ||||||||||| ||||||||
---------------------gtagcacaaaatttctactacatcaacactt----tgagttttaatatgccac--ttaccgcttttgtttccccaaaacagGTATTCGGTGCCCTAATAATTGCAAAGTTGCTCTGCGTCCCTCTAGTAATGTCGTACCACACCCATGTTCCAAT
















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|67042909|gb|CO469164.1|CO469164
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
EST: gi|78076032|gb|DV504466.1|DV504466
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
EST: gi|87156413|gb|DY401202.1|DY401202
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
EST: gi|211101762|gb|FL133076.1|FL133076
EST:     TGCTAGATTCAAGCCTGACATTATTCACGCCTNCT-CACCTGGGATTATG                         GGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAAT
genomic: TGCTAGATTCAAGCCTGACATTATTCACGCCT-CTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagG-TATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAAT
EST: gi|26560034|gb|CA832269.1|CA832269
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
EST: gi|91869857|gb|EB400576.1|EB400576
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
EST: gi|148981111|gb|EE027429.2|EE027429
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
EST: gi|22935606|gb|BU571881.1|BU571881
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
EST: gi|89762164|gb|DY689888.1|DY689888
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
EST: gi|86473030|gb|DY239400.1|DY239400
EST:     TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATG                         GTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG
genomic: TTGCTAGATTCAAGCCTGACATTATTCACGCCTCTTCACCTGGGATAATGgtcggtcatt ... ttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttcatatatattctgctaaaacaaaactgttccttcattttcttcttggcagGTATTTGGCGCGCTTATCATAGCAAAGTTGCTCTGCGTCCCTCTGGTAATGTCATACCACACCCACGTTCCAAT
                tgctaaa  putative branch site (score: 2)
                             ctgttccttcattttc  putative PPT
      atatatattct  TA-rich tract