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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttactgtataatcttttaatcttattctctccatttggagccatttttttcttgagtagtcttgtttgaccattgatttttttgtgggacctgtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCTGAGGCCCTCTGCGGCATATGTCCTCAACCTTTCAAGGAGTTTCTTGAGG

Basic information

species Zea mays
transcript GRMZM2G017835_T01
intron # 8
splice site 3'
intron type U2

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|211242967|gb|FL282600.1|FL282600
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTA
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTA
EST: gi|76015692|gb|DT942862.1|DT942862
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCT
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCT
EST: gi|87156608|gb|DY401397.1|DY401397
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAA-GATGAATACCTCACCT
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCT
EST: gi|76285883|gb|DV025451.1|DV025451
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCT
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCT
EST: gi|32832272|gb|CD971950.1|CD971950
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTA
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTA
EST: gi|211242968|gb|FL282601.1|FL282601
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGYTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGA
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGG-TGATAATAAATCATTTTTGGTGTGCAAGAGAAAGA
EST: gi|32832300|gb|CD971978.1|CD971978
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTA
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTA
EST: gi|211501408|gb|FL138834.1|FL138834
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCT
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCT
EST: gi|60345255|gb|DN212228.1|DN212228
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTG
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTG
EST: gi|32832043|gb|CD971721.1|CD971721
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTA
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTA
EST: gi|32835538|gb|CD975216.1|CD975216
EST:     ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAG                         GGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGT
genomic: ATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttact ... gtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttgagtagtcttgtttgaccattgatttttttgtgggacctgtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCTGAGGCCCTCTGCGGCATATGTCCTCAACCTTTCAAGGAGTTTCTTGAGG
                       cattgat  putative branch site (score: 4)
                        attgatttttttgt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcttactgtataatcttttaatcttattctctccatttggagccatttttttcttgagtagtcttgtttgaccattgatttttttgtgggacctgtgtttacagGGTGATAATAAATCATTTTTGGTGTGCAAGAGAAAGATGAGTACCTCACCTGAGGCCCTCTGCGGCATATGTCCTCAACCTTTCAAGGAGTTTCTTGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG