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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtcgcttacccactgccaactcagcgccatactgttgaattttttttttacctatttctatttatggtgatggtggtggtggtgtgcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCGGCGGGTGCGTCGCTTCGTGGAGCGGCGATCGGAGATTGCCGGCGGTCAA

Basic information

species Zea mays
transcript GRMZM2G153704_T02
intron # 1
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|211504701|gb|FL413777.1|FL413777
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACCCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211506661|gb|FL391682.1|FL391682
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211063244|gb|FL401231.1|FL401231
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211360698|gb|FL393782.1|FL393782
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211317026|gb|FL376018.1|FL376018
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211066519|gb|FL419923.1|FL419923
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|31355588|gb|CD439945.1|CD439945
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|31355374|gb|CD439731.1|CD439731
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211261095|gb|FL369174.1|FL369174
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|148977355|gb|EE026050.2|EE026050
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211369268|gb|FL413710.1|FL413710
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211387307|gb|FL389273.1|FL389273
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211157837|gb|FL370475.1|FL370475
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211298858|gb|FL392429.1|FL392429
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|148971787|gb|EE022525.2|EE022525
EST:     CGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: CGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211485157|gb|FL401977.1|FL401977
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|31354767|gb|CD439124.1|CD439124
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|149055222|gb|EE156147.2|EE156147
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211441205|gb|FL381373.1|FL381373
EST:     AAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|149083192|gb|EE172463.2|EE172463
EST:     CGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: CGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211482782|gb|FL423805.1|FL423805
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|31355150|gb|CD439507.1|CD439507
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211471554|gb|FL402494.1|FL402494
EST:     AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
EST: gi|211266596|gb|FL404017.1|FL404017
EST:     AATCGCATTTCGAAATCCCCAAACGGAGGCCTCGCCACTCTTCCGAACCT                         GAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG
genomic: AATCGCATTTCGAAATCCCCAAACGGAAGCATCGCCACTCTTCCGAACCTgtagtcgctt ... gcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttacctatttctatttatggtgatggtggtggtggtgtgcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCGGCGGGTGCGTCGCTTCGTGGAGCGGCGATCGGAGATTGCCGGCGGTCAA
            tatttctatttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtcgcttacccactgccaactcagcgccatactgttgaattttttttttacctatttctatttatggtgatggtggtggtggtgtgcgatcgcagGAACAATCACCACCGTTATTAAGAAGATGATGCGCTGCGCTGCAACGGGCGGCGGGTGCGTCGCTTCGTGGAGCGGCGATCGGAGATTGCCGGCGGTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT