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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAAAGAGGGGGCGAAAAACAGATATTGCTTCCATGCAAAATATGATGAGCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaatttcacctgagtgttctcagttcacatattgtagccaaattttgtgatgcgctacacctgaaagcaaacatattgtgtaaaatgagttgactcagtaagattttcttttttggtctttcgcag

Basic information

species Zea mays
transcript GRMZM2G106056_T02
intron # 22
splice site 5'
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|60354502|gb|DN221475.1|DN221475
EST:     GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGG                         GTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
genomic: GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaattt ... tctttcgcagGTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
EST: gi|26559214|gb|CA831449.1|CA831449
EST:     GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGG                         GTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTCT
genomic: GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaattt ... tctttcgcagGTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGT-T
EST: gi|87156002|gb|DY400791.1|DY400791
EST:     GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGG                         GTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
genomic: GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaattt ... tctttcgcagGTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
EST: gi|211389765|gb|FL034465.1|FL034465
EST:     GCAAAGATGACGATGATTCASAAGATGAACCGCCAAAGAAAACTCCTCGG                         GTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGAC
genomic: GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaattt ... tctttcgcagGTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGAC
EST: gi|60345446|gb|DN212419.1|DN212419
EST:     GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGG                         GTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
genomic: GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaattt ... tctttcgcagGTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
EST: gi|91052428|gb|EB162846.1|EB162846
EST:     GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGG                         GTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
genomic: GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaattt ... tctttcgcagGTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
EST: gi|211359817|gb|FL457852.1|FL457852
EST:     GCAAAGATGMCGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGG                         GTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
genomic: GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaattt ... tctttcgcagGTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
EST: gi|22521167|gb|BU079978.1|BU079978
EST:     GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGG                         GTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC
genomic: GCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaattt ... tctttcgcagGTCACCAGGAACTATGGCGCTGTCAGGAGGAGATGACCCTTTAAGGAGTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCAAAGAGGGGGCGAAAAACAGATATTGCTTCCATGCAAAATATGATGAGCAAAGATGATGATGATTCAGAAGATGAACCGCCAAAGAAAACTCCTCGGgtcagaatttcacctgagtgttctcagttcacatattgtagccaaattttgtgatgcgctacacctgaaagcaaacatattgtgtaaaatgagttgactcagtaagattttcttttttggtctttcgcag

- - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC