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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaaaactatgatcattttggaatgcaaaacatttaatgttgaattatgtgttaagtctcacaacttcccttttgccagCACCGTCAAGTGGGTTACCGAGTAGAGGACTAAGCAACGGTACATATGAATATAGTAGACGTGTATTTGGTTCTGTTCTGAATGATGTTAGCCGTCGAGC

Basic information

species Zea mays
transcript GRMZM2G111596_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G111596_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g35274.2 (Oryza sativa), 3'ss of exon 4
gtgaggaaa--actatgatcattttggaatgcaaaacatttaatgttgaattatgtgttaagtctcacaacttcccttttgccagCACCGTCAAGTGGGTTACCGAGTAGAGGACTAAGCAACGGTACATATGAATATAGTAGACGTGTATTTGGTTCTGTTCTGAATGATGTTAGCCGTCGAGC---
|||||  |    |  |  || |||   |||  || ||| |  |||     || |   |||| ||| |||| | || |||      || |  |||||||| || ||||||||||| ||||||| |||||||| |||||||||||||| ||||||||||||||||||||||| |||||||||||  |   
gtgagagagtttccttattcctttcaaaatataagacactgtatg----gtttttaattaaatcttacaattcccttttcttgtccagCACCAAGTGGGATATCGAGTAGAGGATTAAGCAATGGTACATACGAATATAGTAGACGCGTATTTGGTTCTGTTCTGAATGACGTTAGCCGTCGTACTGA
















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|60351218|gb|DN218191.1|DN218191
EST:     GGTATCTCACAAAATCATTCATATGACACTCACACTCAAG                         CACCGTCAAGTGGGTTACCGAGTAGAGGACTAAGCAACGGTACATATGAAT
genomic: GGTATCTCACAAAATCATTCATATGACACTCACACTCAAGgtgaggaaaa ... cttttgccagCACCGTCAAGTGGGTTACCGAGTAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|194716907|gb|FK934066.1|FK934066
EST:     TGCTGGGTATGGTATCTCACAAAATCATTCATATGACACTCACACTCAAG                         CACCGTCAAGTGGGTTACCGAGTAGAGGACTAAGCAACGGTAC
genomic: TGCTGGGTATGGTATCTCACAAAATCATTCATATGACACTCACACTCAAGgtgaggaaaa ... cttttgccagCACCGTCAAGTGGGTTACCGAGTAGAGGACTAAGCAACGGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaaaacatttaatgttgaattatgtgttaagtctcacaacttcccttttgccagCACCGTCAAGTGGGTTACCGAGTAGAGGACTAAGCAACGGTACATATGAATATAGTAGACGTGTATTTGGTTCTGTTCTGAATGATGTTAGCCGTCGAGC
                               gtctcac  putative branch site (score: 3)
                                        cttcccttttgcc  putative PPT
       atttaatgttgaatta  TA-rich tract