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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaatgtagcccatggaacttgagatatatatgtcaaacatttgatgtgggaaacaaaagagtccaagctatatatataatgtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTGTGGATGATCGTTCAG

Basic information

species Zea mays
transcript GRMZM2G053177_T02
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|91056995|gb|EB167413.1|EB167413
EST:     CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAG                         ACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
genomic: CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAGgtaacaatgt ... gtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
EST: gi|31351841|gb|CD436198.1|CD436198
EST:     CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAG                         ACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
genomic: CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAGgtaacaatgt ... gtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
EST: gi|76920088|gb|DV168002.1|DV168002
EST:     CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAG                         ACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
genomic: CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAGgtaacaatgt ... gtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
EST: gi|31351842|gb|CD436199.1|CD436199
EST:     CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAG                         ACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
genomic: CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAGgtaacaatgt ... gtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
EST: gi|71430904|gb|DR811954.1|DR811954
EST:     CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAG                         ACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
genomic: CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAGgtaacaatgt ... gtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
EST: gi|31352973|gb|CD437330.1|CD437330
EST:     CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAG                         ACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG
genomic: CATATCAAATGGTGCAAGCAATGAACATCCTGTCCAAGAGGATCAAAAAGgtaacaatgt ... gtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatttgatgtgggaaacaaaagagtccaagctatatatataatgtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTGTGGATGATCGTTCAG
   atttgat  putative branch site (score: 5)
                                            tgtttct  putative PPT
                                 tatatatataatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacaatgtagcccatggaacttgagatatatatgtcaaacatttgatgtgggaaacaaaagagtccaagctatatatataatgtttctgtagACCTCATACGGCAACAACACAACTTCTCAAACACTGGAGACGACATTATTGTGGATGATCGTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA