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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagaaaatttctttagtaatatgctttgcaaatggtttataatgccagtgcatgaaaaaacatcacacatgaagcaagtgtagctaatgagctctatatacagGCTCTTTATCACGAATACTATGGAGATAAACAGGGCGCACTGGAGAATTTGATTCAGTGTGGCAACCGGAAGAAAGCTCATACTATTTTCGTGACTTCTG

Basic information

species Zea mays
transcript GRMZM5G861959_T01
intron # 4
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|74241216|gb|DT649130.1|DT649130
EST:     AATACATTGTAGAACTTGGTATACCAGAAGAATGGATGCATGAAGCTCTG                         GCTCTTTATCACGAATACTATGGAGATAAACAGGGTGCACTGGAGAATTTG
genomic: AGTACATTGTAGAACTTGGTATACCAGAAGAATGGATGCATGAAGCTCTGgtgagtagaa ... ctatatacagGCTCTTTATCACGAATACTATGGAGATAAACAGGGCGCACTGGAGAATTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatgaaaaaacatcacacatgaagcaagtgtagctaatgagctctatatacagGCTCTTTATCACGAATACTATGGAGATAAACAGGGCGCACTGGAGAATTTGATTCAGTGTGGCAACCGGAAGAAAGCTCATACTATTTTCGTGACTTCTG
                                 agctaat  putative branch site (score: 3)
      aaaaaacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtagaaaatttctttagtaatatgctttgcaaatggtttataatgccagtgcatgaaaaaacatcacacatgaagcaagtgtagctaatgagctctatatacagGCTCTTTATCACGAATACTATGGAGATAAACAGGGCGCACTGGAGAATTTGATTCAGTGTGGCAACCGGAAGAAAGCTCATACTATTTTCGTGACTTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA