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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACGTGTTGATGGCTTCTCTTCGCAGCAAAACAGAGACGATAATAAATTCACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctgatcatttcacttctttcattgaagtggtgcttacatttcccctttttcatttcagagatacagttgttaactaaagttaaactgcatatt...

Basic information

species Zea mays
transcript GRMZM2G101250_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G101250_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os04g09860.1 (Oryza sativa), 5'ss of exon 6
GGACGTGTTGATGGCTTCTCTTCGCAGCAAAACAGAGACGATAATAAATTCACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctgatcatttcacttctttcattgaagtggtgcttacatttcccctttttcatttcagagatacagttgttaactaaagttaaactgcatatt-----
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GGACGTGTTGATGCCCTTTCTTCACAGCAAAACAAAGATGATAGTAAATTCACATGGACAGATGTAATGGACAGAAGTATTAAATCATCTACACCAATTGgtactgtctgatcattttgcttgttttatggg---gacacttcattctttgttttctcttttcatagttgt--ccgttagctgaagctaaattgtatactttaag
















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|211065118|gb|FL021085.1|FL021085
EST:     CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCG                         ATAGGTCAGTATACAAGGATGCTG
genomic: CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctg ... aatttgtcagATAGGTCAGTATACAAGGATGCTG
EST: gi|211065127|gb|FL021094.1|FL021094
EST:     CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCG                         ATAGGTCAGTATACAAGGATGCTGAGGA
genomic: CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctg ... aatttgtcagATAGGTCAGTATACAAGGATGCTGAGGA
EST: gi|211067851|gb|FL021097.1|FL021097
EST:     CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCG                         ATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCCAAGCACATCTG
genomic: CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctg ... aatttgtcagATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCCAAGCACATCTG
EST: gi|211065128|gb|FL021095.1|FL021095
EST:     CTTGGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTTCG                         ATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCCAAGCACA
genomic: CTTGG-ACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATT-CGgtactttctg ... aatttgtcagATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCCAAGCACA
EST: gi|91056341|gb|EB166759.1|EB166759
EST:     CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCG                         ATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCCAAGCACATCTG
genomic: CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctg ... aatttgtcagATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCCAAGCACATCTG
EST: gi|211065125|gb|FL021092.1|FL021092
EST:     CACTTGGACAGATGTGTCAGAGAGAATTATTAAGTCATCCACACCATTCG                         ATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCC
genomic: CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctg ... aatttgtcagATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCC
EST: gi|148934269|gb|EC878292.2|EC878292
EST:     CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCG                         ---G-TCAGTATACAAGGATGCTGAGGAAGATACTCTGCCAAGCACATCTG
genomic: CACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctg ... aatttgtcagATAGGTCAGTATACAAGGATGCTGAGGAAGATACTCTGCCAAGCACATCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACGTGTTGATGGCTTCTCTTCGCAGCAAAACAGAGACGATAATAAATTCACTTGGACAGATGTGTCAGAGAGAATTATTAAGCCATCCACACCATTCGgtactttctgatcatttcacttctttcattgaagtggtgcttacatttcccctttttcatttcagagatacagttgttaactaaagttaaactgcatatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG