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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgtgcaatccatgcaacttgtgttctccttgtctattcacgctcacgttcttgaagcgtgaagtgctagtttctgcccctctagttcgttgttttggctctttaataaagtttctcatggaatgtggttattgtcttgttctttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG

Basic information

species Zea mays
transcript GRMZM2G422938_T02
intron # 2
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|149104327|gb|EE289772.2|EE289772
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAC
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|149089899|gb|EE179185.2|EE179185
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|148947022|gb|EC892319.2|EC892319
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|211338713|gb|FL158147.1|FL158147
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|47962573|gb|CN845282.1|CN845282
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|93014248|gb|EB639768.1|EB639768
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCCTCAAGAATGGAAGGGAAATCCCATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|89761789|gb|DY689662.1|DY689662
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|91051790|gb|EB162208.1|EB162208
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|211372983|gb|FL340766.1|FL340766
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|31612368|gb|CD568990.1|CD568990
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|50331881|gb|CO527007.1|CO527007
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
EST: gi|18166002|gb|BM335841.1|BM335841
EST:     ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACG                         ATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
genomic: ATTTCGGGTGATAAATCCGACGAACAGACAGCACGCGACGgtacatgtgc ... ttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctttaataaagtttctcatggaatgtggttattgtcttgttctttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG
  ctttaat  putative branch site (score: 4)
                              ttattgtcttgttctt  putative PPT
                                      ttgttcttttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatgtgcaatccatgcaacttgtgttctccttgtctattcacgctcacgttcttgaagcgtgaagtgctagtttctgcccctctagttcgttgttttggctctttaataaagtttctcatggaatgtggttattgtcttgttctttttttacagATGGAATCATCAAGAATGGAAGGGAAATCCTATTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG