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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatccaaaaaatatgagacagattagcatattaataagtgccttgtatacaaagactttgcccacatatgcaattaaccttacttttatctttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTGGATTACAAAAGGGAGTGTGTCCGCGATAGTGTGCTGCAGTCACACACCT

Basic information

species Zea mays
transcript GRMZM2G079308_T01
intron # 13
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|87154305|gb|DY399094.1|DY399094
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|148947966|gb|EC893465.2|EC893465
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|211198985|gb|FL379479.1|FL379479
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|148944069|gb|EC889154.2|EC889154
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|89759410|gb|DY688253.1|DY688253
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|21330083|gb|BQ485464.1|BQ485464
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|78106093|gb|DV524511.1|DV524511
EST:     TCAATAATGTTAAATACATTGCGTGGATT-TTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: TCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|32867853|gb|CF007535.1|CF007535
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|32870399|gb|CF010081.1|CF010081
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|7227656|gb|AW566297.1|AW566297
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|6012678|gb|AW062115.1|AW062115
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
EST: gi|6022624|gb|AW067436.1|AW067436
EST:     ATATAAACCAGCATGTCAATAATGTTAAATACATTGCATGGATTCTTGAG                         AGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG
genomic: ATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAGgtaattttct ... tttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatacaaagactttgcccacatatgcaattaaccttacttttatctttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTGGATTACAAAAGGGAGTGTGTCCGCGATAGTGTGCTGCAGTCACACACCT
                                ccttacttttatcttt  CT-rich tract
                                  ttacttttatcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatccaaaaaatatgagacagattagcatattaataagtgccttgtatacaaagactttgcccacatatgcaattaaccttacttttatctttgcctcagAGTGCACCGATTACTATTTTTGAGAATCATGAGCTGGCCAGCATTGTGCTGGATTACAAAAGGGAGTGTGTCCGCGATAGTGTGCTGCAGTCACACACCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - -aaaaaat
- - - - - - - - - - - - - - - - - - - tgccttg
- - - - - - - - - - - - - - - - - - - - - - - atacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgcaa