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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cggcggtatttcctgcattgtgtgatgtcatttctcgggctgcatgggcagctaactcgctcgtctgtgttttcttaattttttttcctttggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTCTGAAGGACCATCTCTCCACGCCTACAGGCCCCTTGCATCTCAAAGTATG

Basic information

species Zea mays
transcript GRMZM2G034855_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|211389700|gb|FL031651.1|FL031651
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGNCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|149080157|gb|EE169175.2|EE169175
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|71416639|gb|DR803774.1|DR803774
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|91052743|gb|EB163161.1|EB163161
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|149005498|gb|EE040057.2|EE040057
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGGCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|149009874|gb|EE041740.2|EE041740
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|211392320|gb|FL031655.1|FL031655
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|149014249|gb|EE043812.2|EE043812
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|50333923|gb|CO529049.1|CO529049
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|71322787|gb|DR798079.1|DR798079
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|211392321|gb|FL031656.1|FL031656
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|148991913|gb|EE033525.2|EE033525
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|211017021|gb|FL053486.1|FL053486
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|211392317|gb|FL031652.1|FL031652
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|101387492|gb|EB815761.1|EB815761
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|37422082|gb|CF648746.1|CF648746
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|149081318|gb|EE170432.2|EE170432
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|149089067|gb|EE178232.2|EE178232
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|93014543|gb|EB640063.1|EB640063
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
EST: gi|148945947|gb|EC891240.2|EC891240
EST:     TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCG                         GAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC
genomic: TGGAGCGGAGATCCGGCCGCTCGGGCGTCGGCTGCTTCCTCGTTCTGCCGgtgagttggc ... tggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggcagctaactcgctcgtctgtgttttcttaattttttttcctttggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTCTGAAGGACCATCTCTCCACGCCTACAGGCCCCTTGCATCTCAAAGTATG
                  tctgtgttttcttaat  CT-rich tract
                        ttttcttaattttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cggcggtatttcctgcattgtgtgatgtcatttctcgggctgcatgggcagctaactcgctcgtctgtgttttcttaattttttttcctttggtctgtagGAGCAAGAAGCTGGCATCCCGCCATGTCGTCACCGATGCCCTCCCCTACTCTGAAGGACCATCTCTCCACGCCTACAGGCCCCTTGCATCTCAAAGTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - tcctgca
- - - - - - - - - - tgtgatg
- - - - - - - - - - - - - - - - - - - - tgcatgg
- - - - - - - - - - - - - - - - - - - - - - - -gcagcta