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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGAGTTCCTGTTTCATCTGACAAGTTCTGGCTGTTAACGAAGAACCAAGCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacattttgctgtgttcatcttctggaagtcgacattcctcatgttctagagggtcaggctttgctgaaaaattaattgtgtccag

Basic information

species Zea mays
transcript GRMZM2G032222_T03
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G032222_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os10g37210.1 (Oryza sativa), 5'ss of exon 3
TCAGAGTTCCTGTTTCATCTGACAAGTTCTGGCTGTTAACGAAGAACCAAGCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacattttgctgtg---------ttcatcttctggaagtcg----acattcctcatgttctagagggtcaggctttgctgaaaa--attaattgtgtccag
| ||||| || || ||||||||||||||||||||||| || |||||  | || |||||||| |||||||| || || ||||| |||||||| ||||| ||||||  | |||||  | |          |||||||     ||||      | ||| | | | ||| | ||  || |  |||    | ||   |||||  |||||||
TAAGAGTCCCCGTCTCATCTGACAAGTTCTGGCTGTTGACAAAGAATAAGGCATGGACACTTCCATCTCCTTTCGATAACAAGGGAAACTATGTGATAAGgtgctgagattttcttctaattattagcttcatctatgcaaagttctagtatatttcacttattcgacagtatctgattttagaaacaatgcttaatattgtccag
















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|26557801|gb|CA830036.1|CA830036
EST:     GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAG                         CTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
genomic: GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacat ... ttgtgtccagCTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
EST: gi|76020279|gb|DT947449.1|DT947449
EST:     GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAG                         CTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
genomic: GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacat ... ttgtgtccagCTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
EST: gi|94479207|gb|EB708165.1|EB708165
EST:     GCTTGGACACTACCCTCTCCATTTGACAACCAAGGAAACTACGTGATCCG                         CTTGAGCCCATTGGTGCCTTGGATGGCC
genomic: GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacat ... ttgtgtccagCTTGAGCCAATTGGTGCGTTGGATGGCC
EST: gi|21809981|gb|BQ668299.1|BQ668299
EST:     GC-TGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAG                         CTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
genomic: GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacat ... ttgtgtccagCTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
EST: gi|211360621|gb|FL160384.1|FL160384
EST:     GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAG                         CTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
genomic: GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacat ... ttgtgtccagCTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
EST: gi|24768393|gb|CA403522.1|CA403522
EST:     GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAG                         CTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT
genomic: GCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacat ... ttgtgtccagCTTGAGCCAATTGGTGCGTTGGATGGCCACAAAAGCTGAAGAGTTGGGTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAGAGTTCCTGTTTCATCTGACAAGTTCTGGCTGTTAACGAAGAACCAAGCTTGGACACTACCATCTCCATTTGACAACAAAGGAAACTACGTGATCAGgtgccaacattttgctgtgttcatcttctggaagtcgacattcctcatgttctagagggtcaggctttgctgaaaaattaattgtgtccag

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