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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttcaatttctaaggctacagttattgtctttggtatcttataaacactgaacttaccaattccattttgcagctacctcagACAAATCCTGGCTTGAACAACACTCCCTTCAAGTTTACTAAATATTCAAATGCATACATGCTTGTGTACATTCGTGAAAGCGACAAGGACAAAATTATTT

Basic information

species Zea mays
transcript GRMZM2G018508_T03
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G018508_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os07g06950.1 (Oryza sativa), 3'ss of exon 13
gtatgtttcaatttctaaggctacagttattgtctttggtatcttataaacactgaacttaccaattccattttgcagctacctcagACAAATCCTGGCTTGAACAACACTCCCTTCAAGTTTACTAAATATTCAAATGCATACATGCTTGTGTACATTCGTGAAAGCGACAAGGACAAAATTATTT
||  ||| | ||||  ||| ||  |||  || | |||| |  | || ||||| ||| || | ||||| | ||||||||||||||||||| ||||||||  | ||||| ||||| |||||||| |||||||||||||| ||||||||||||||||||||||| ||||| ||||||||||         
gttcgttgccattttgaagtctg-agtgcttatgtttgttgccgtagaaacattgagctgatcaatttccttttgcagCTACCTCAGACTAATCCTGGTCTAAACAATACTCCTTTCAAGTTCACTAAATATTCAAACGCATACATGCTTGTGTACATTCGCGAAAGTGACAAGGACA---------

upper sequence: GRMZM2G018508_T03 (Zea mays), 3'ss of exon 9
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 12
------gtatgtttcaat-ttctaaggct--acagttattgtctttggtatctta--taaacactgaacttaccaattc-----------cattttgcagctacctcagACAAATCCTGGCTTGAACAACACTCCCTTCAAGTTTACTAAATATTCAAATGCATACATGCTTGTGTACATTCGTGAAAGCGACAAGGACAAAATTATTT
      |||    |  || || | | |||  |   |  || | | | |  |   |  ||||  |    | ||    | |            || |||||||| || || |||||||| || || || ||||||||||||||||| || ||||| ||||| ||||||||| | ||||| ||  | ||   |||||||||||         
ttcagagtactagttgatattattatgctttatgatggttttttctagcgttgcaactaaaatccagccgtatttgtgcggtgatgttcttatcttgcagCTTCCACAAACAAATCCAGGTTTTAATAACACTCCCTTCAAGTTCACAAAATACTCAAACGCATACATGTTGGTGTATATCAGAGAGGCCGACAAGGACA---------
















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|32837610|gb|CD977288.1|CD977288
EST:     AAGAAGATGCAAAGAGGGCACTGGAAGAACAATATGGTGGTGAGGAGGAG                         ACAAATCCTGGCTTGAACAACACTCCCTTCAAGTTTACTAAATATTCAAAT
genomic: AAGAAGATGCAAAGAGGGCACTGGAAGAACAATATGGTGGTGAGGAGGAGgtatgtttca ... gctacctcagACAAATCCTGGCTTGAACAACACTCCCTTCAAGTTTACTAAATATTCAAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttggtatcttataaacactgaacttaccaattccattttgcagctacctcagACAAATCCTGGCTTGAACAACACTCCCTTCAAGTTTACTAAATATTCAAATGCATACATGCTTGTGTACATTCGTGAAAGCGACAAGGACAAAATTATTT
                       aacttac  putative branch site (score: 2)
                                              ctacctc  putative PPT
       tatcttataaa  TA-rich tract