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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcatgttctttggatgaaataggtggcacacctagcaagatgtggatatcaaaccatgaacatgttgtactaatgggttttttacattggcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAGGTGGAGGCGATGAGTACAATAGTAACCGTGGGAGGTCAAACGGTTACGG

Basic information

species Zea mays
transcript GRMZM2G167932_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|31351085|gb|CD435442.1|CD435442
EST:     GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAA                         GGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
genomic: GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAAgtaagttctt ... gcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
EST: gi|9952188|gb|BE638771.1|BE638771
EST:     GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAA                         GGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
genomic: GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAAgtaagttctt ... gcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
EST: gi|31354051|gb|CD438408.1|CD438408
EST:     GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAA                         GGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
genomic: GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAAgtaagttctt ... gcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
EST: gi|113660767|gb|DW819491.1|DW819491
EST:     CAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAA                         GGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
genomic: CAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAAgtaagttctt ... gcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
EST: gi|22542391|gb|BU092829.1|BU092829
EST:     GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAA                         GGAGGGGAGGACGTGGCCGTTTTAGTGGTGGAGGCCGGGGATATTTGAGAG
genomic: GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAAgtaagttctt ... gcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
EST: gi|32808337|gb|CD960571.1|CD960571
EST:     GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAA                         GGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
genomic: GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAAgtaagttctt ... gcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
EST: gi|8367891|gb|BE050836.1|BE050836
EST:     GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAA                         GGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
genomic: GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAAgtaagttctt ... gcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
EST: gi|32847652|gb|CD987333.1|CD987333
EST:     GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAA                         GGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG
genomic: GCAGATATATGTTGAGGAGAGGAAGCCAAATAGCGGAATAAGAGGTGGAAgtaagttctt ... gcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatcaaaccatgaacatgttgtactaatgggttttttacattggcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAGGTGGAGGCGATGAGTACAATAGTAACCGTGGGAGGTCAAACGGTTACGG
                       tactaat  putative branch site (score: 1)
                                 ttttttacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcatgttctttggatgaaataggtggcacacctagcaagatgtggatatcaaaccatgaacatgttgtactaatgggttttttacattggcattggcagGGAGGGGAGGACGTGGCCGTTTCAGTGGTGGAGGCCGGGGATATTCGAGAGGTGGAGGCGATGAGTACAATAGTAACCGTGGGAGGTCAAACGGTTACGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG