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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattcaatactccggactgacagcattggatttcttctgtttctttgtttgccttgcccctgacagtgggctcgccgtttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCTCACCTGTTCCGTGTCAGCGTCACGCAGCATGAATACATGAACGAGAAGA

Basic information

species Zea mays
transcript GRMZM2G086934_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G086934_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os03g11540.1 (Oryza sativa), 3'ss of exon 11
--gtaaattcaatact--ccggactgacagcattggatttcttc-tgttt-----ctttgtttgccttgcccctgacagtgggctcgccgtttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCTCACCTGTTCCGTGTCAGCGTCACGCAGCATGAATACATGAACGAGAAGA
   | | |||||   |   | || |    || || | ||||| | ||  |        | |||    ||  ||| | | ||       |  |||||| |||||||| || ||||| ||| |||||||||| |||||||| || |||||||||||||||||||| |||||||| || ||| |||| |||||||| |||||||
gcttcagttcaactttgtgcagattctaggctttagttttctacatgcctaagattgctatttaagctgtgcctaagattgttggtctcaattgttt-cagGAGGGTGATGACAGTTACCTTCTCAAGCTGAAGGAAGCTACTTGGGTTCCTCACCTGTTCCGCGTCAGCGTAACTCAGAATGAGTACATGAATGAGAAGA
















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|84970001|gb|DW468385.1|DW468385
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|110521782|gb|EE025966.1|EE025966
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|7238099|gb|AW573471.1|AW573471
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|32929843|gb|CF034655.1|CF034655
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|67028077|gb|CO456826.1|CO456826
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|211227170|gb|FL464276.1|FL464276
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|149086432|gb|EE175975.2|EE175975
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|74239181|gb|DT647095.1|DT647095
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|67023291|gb|CO452040.1|CO452040
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAA                         GANGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|211375733|gb|FL457574.1|FL457574
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|60342386|gb|DN209359.1|DN209359
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|211223034|gb|FL464238.1|FL464238
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCT
EST: gi|166706468|gb|EG124347.1|EG124347
EST:     AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAG                         GAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCC
genomic: AGAAGATCATTGGCTGCAGCGCCGACGAGCTTGATCGGATCAGGAAAGAGgtaaattcaa ... ttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctgtttctttgtttgccttgcccctgacagtgggctcgccgtttgtttgcagGAGGGGGACGACAGCTACGTTCTCAAGCTCAAGGAAGCCACCTGGGTTCCTCACCTGTTCCGTGTCAGCGTCACGCAGCATGAATACATGAACGAGAAGA
                        ccctgac  putative branch site (score: 3)
                                            tttgttt  putative PPT
      tttcttt  TA-rich tract