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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggatcatgcaccatattccttctgaacggtggaatgcagcctcttacagggtcctctctccctactaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACCGTCGTTCCGGTCCATGCCCGAGGACAAGCTGCGGCGGCCGCTGACCATC

Basic information

species Zea mays
transcript GRMZM2G135568_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|31356839|gb|CD441196.1|CD441196
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|89249738|gb|DY621524.1|DY621524
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|37397489|gb|CF636044.1|CF636044
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|149083910|gb|EE173286.2|EE173286
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|40337041|gb|CK371111.1|CK371111
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|71757754|gb|DR955691.1|DR955691
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|101381892|gb|EB813003.1|EB813003
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|31349910|gb|CD434267.1|CD434267
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|149082655|gb|EE171861.2|EE171861
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|31355974|gb|CD440331.1|CD440331
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|88748264|gb|DY532405.1|DY532405
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
EST: gi|60339241|gb|DN206214.1|DN206214
EST:     GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAG                         ACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC
genomic: GTAGCTTCTAATATCAATGAGGAAGAGAATGCTGAAAGTCTCTATCGGAGgtaggatcat ... actaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctgaacggtggaatgcagcctcttacagggtcctctctccctactaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACCGTCGTTCCGGTCCATGCCCGAGGACAAGCTGCGGCGGCCGCTGACCATC
                                            tactaaa  putative branch site (score: 1)
                                 tcctctctccctact  CT-rich tract
                                            tactaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggatcatgcaccatattccttctgaacggtggaatgcagcctcttacagggtcctctctccctactaaaacagACTGCGGAAGGGGAAAGCTCTGTCACAGGACTACACAGATGACTCGGTACCGTCGTTCCGGTCCATGCCCGAGGACAAGCTGCGGCGGCCGCTGACCATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC