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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcttgtttctgaacgagtacagtcgagtagtatgctgcagcagtattatttgttgcttcaggaagcatgatatggttactttctcttactgctacagAACTGCAGTGACAAATGGTAGTGCCATTAAGCATGATGGCTCATATGAATCAGATCCTGCAGTTGAG

Basic information

species Zea mays
transcript GRMZM5G851405_T01
intron # 5
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|60354044|gb|DN221017.1|DN221017
EST:     G-AAAAGAGGAATTCCTGCATACATTTTCGAAGGAATGTGAATATATCAG                         AACTGCAGTGACAAATGGTAGTGCCATTAAGCATGATGGCTCATATGAATC
genomic: GAAAAAGAGGAATTCCTGCATACATTTTCGAAGGAATGTGAATATATCAGgtactcttgt ... actgctacagAACTGCAGTGACAAATGGTAGTGCCATTAAGCATGATGGCTCATATGAATC
EST: gi|31611898|gb|CD568520.1|CD568520
EST:     ATTCCTGCATACATTTTCGAAGGAATGTGAATATATCAG                         AACTGCAG-GACAAATGGTAG-GCCATTAAGCATGATGGCTCATATGAATC
genomic: ATTCCTGCATACATTTTCGAAGGAATGTGAATATATCAGgtactcttgt ... actgctacagAACTGCAGTGACAAATGGTAGTGCCATTAAGCATGATGGCTCATATGAATC
EST: gi|71766135|gb|DR964072.1|DR964072
EST:     GAAAAAGAGGAATTCCTGCATACATTTTCGAAGGAATGTGAATATATCAG                         AACTGCAGTGACAAATGGTAGTGCCATTAAGCATGATGGCTCATATGAATC
genomic: GAAAAAGAGGAATTCCTGCATACATTTTCGAAGGAATGTGAATATATCAGgtactcttgt ... actgctacagAACTGCAGTGACAAATGGTAGTGCCATTAAGCATGATGGCTCATATGAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattatttgttgcttcaggaagcatgatatggttactttctcttactgctacagAACTGCAGTGACAAATGGTAGTGCCATTAAGCATGATGGCTCATATGAATCAGATCCTGCAGTTGAG
                                        ctcttac  putative branch site (score: 3)
                                 ttactttctcttact  CT-rich tract
     atttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactcttgtttctgaacgagtacagtcgagtagtatgctgcagcagtattatttgttgcttcaggaagcatgatatggttactttctcttactgctacagAACTGCAGTGACAAATGGTAGTGCCATTAAGCATGATGGCTCATATGAATCAGATCCTGCAGTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG