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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGCGGAAGGAGAAGGAAGACGATTTCCTTGCGATGAAGGGCACCAAGCTGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacgcctgccctgagatcgatttgatcctctatttctaacccgatttccaaatcgatctctgctctcaaaacttaacatgtgctcttcccccttgatttttatcatgcag

Basic information

species Zea mays
transcript GRMZM2G077607_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G077607_T06 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g48830.2 (Oryza sativa), 5'ss of exon 3
GTCGCGGAAGGAGAAGGAAGACGATTTCCTTGCGATGAAGGGCACCAAGCTGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtat-taaacgcctgccctg-agatcgatttgatcctctatttctaacccgatttccaaatcgatctctgctctcaaaacttaacatgtg-ctcttcccccttgatttttatcatgcag
|||||| ||||||||||| ||||| ||| |    |||||||||||||||||||| ||| |||||||||| ||||| ||||||||||||||||||||||||||||   ||    ||| | | | | ||   ||||| | | |        | |||     |||  | |||| || || | || |||||||| ||| |    |      | |    |||||
GTCGCGCAAGGAGAAGGAGGACGACTTCTTGATCATGAAGGGCACCAAGCTGCCTCAGAGGCCCAAGAAGAGGGCCAAGAACGTGGACAAGACCCTCCAAgtatgccaatctttgctccgcaaaccggcctgatcttatctgctccgatccattcttgcatctgt-tctgatcacagagct-aacatgtgtctcgtgttgcccccgatgtgatgtgcag

upper sequence: GRMZM2G077607_T06 (Zea mays), 5'ss of exon 3
lower sequence: EFJ29998 (Selaginella moellendorffii), 5'ss of exon 1
GTCGCGGAAGGAGAAGGAAGACGATTTCCTTGCGATGAAGGGCACCAAGCTGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacgcctgccctgagatcg---atttgatcctctatttctaacccgat-ttccaaatcgatctctgctctcaaaacttaacatgtgctcttcccccttgatttttatcatgcag
||| || ||||||||||| ||||||||||| ||||| |||||  |||||||||| ||||||||||||    || | ||| | || || |||||  | || |||       | ||  ||  | | |   | ||  |  | ||||| |      || |||   | | | ||||  | ||    | |  ||                                
GTCCCGCAAGGAGAAGGAGGACGATTTCCTGGCGATCAAGGGATCCAAGCTGCCGCAGCGGCCCAAGCGGCGGACCAAGCATGTCGAGAAGACATTGCACgtaagttcttcgtgttcttggcttgcaaagttttttttttattttttttttaatgttcttgagctaactct--tttcgtttcgttgcag-------------------------------

upper sequence: GRMZM2G077607_T06 (Zea mays), 5'ss of exon 3
lower sequence: EFJ25046 (Selaginella moellendorffii), 5'ss of exon 1
GTCGCGGAAGGAGAAGGAAGACGATTTCCTTGCGATGAAGGGCACCAAGCTGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacgcctgccctgagatcgatttgatcctctatttctaacccgat-ttccaaatcgatctctgctctcaaaacttaacatgtgctcttcccccttgatttttatcatgcag
||| || ||||||||||| ||||||||||| ||||| |||||  |||||||||| ||||||||||||    || | ||| | || || |||||  | || |||       | ||  ||  | | |    | |  | | ||| |      || |||   | | | ||||  | ||    | | |||                                
GTCCCGCAAGGAGAAGGAGGACGATTTCCTGGCGATCAAGGGATCCAAGCTGCCGCAGCGGCCCAAGCGGCGGACCAAGCATGTCGAGAAGACATTGCACgtaagttcttcgtgttcttggcttgcaaagttttttttttttttttttaatgttcttgagctaactct--tttcgtttcgttacag-------------------------------

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|110522399|gb|EE026583.1|EE026583
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|50337368|gb|CO532494.1|CO532494
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|50331099|gb|CO526225.1|CO526225
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|38687645|gb|CK144676.1|CK144676
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|91874845|gb|EB404802.1|EB404802
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|76908493|gb|DV162968.1|DV162968
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|71764405|gb|DR962342.1|DR962342
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|88753314|gb|DY537455.1|DY537455
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|148961771|gb|EE012548.2|EE012548
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|86474504|gb|DY240874.1|DY240874
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|211259122|gb|FL168237.1|FL168237
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGA
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGG-TATGTGGTTGTCCGATTTGACGAGGGGACGGTACGA
EST: gi|148939787|gb|EC884487.2|EC884487
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|148951901|gb|EC897677.2|EC897677
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|149078211|gb|EE166966.2|EE166966
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|94475460|gb|EB704418.1|EB704418
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|149084716|gb|EE174208.2|EE174208
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGGGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGTCGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|71440678|gb|DR821728.1|DR821728
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|148933575|gb|EC877445.2|EC877445
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|101385251|gb|EB814671.1|EB814671
EST:     ACAAGACCCTCC-A                         TTTGGTCTTCCGGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTTACG
genomic: ACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTT-GTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGG-TACG
EST: gi|148963706|gb|EE014774.2|EE014774
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|148953834|gb|EC899210.2|EC899210
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|76914201|gb|DV165443.1|DV165443
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|148963705|gb|EE014773.2|EE014773
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|148997313|gb|EE035808.2|EE035808
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|101385894|gb|EB814995.1|EB814995
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|78080307|gb|DV508719.1|DV508719
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|71434244|gb|DR815294.1|DR815294
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|14244188|gb|BG842258.2|BG842258
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|148956370|gb|EC902184.2|EC902184
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|71756828|gb|DR954765.1|DR954765
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|78079039|gb|DV507451.1|DV507451
EST:     TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
EST: gi|94477672|gb|EB706630.1|EB706630
EST:     TGCCCCAGCGGCTCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAA                         TTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG
genomic: TGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacg ... tatcatgcagTTTGTCTTCCCGGGTATGTGGTTGTCCGATTTGACGAGGGGACGGTACGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCGCGGAAGGAGAAGGAAGACGATTTCCTTGCGATGAAGGGCACCAAGCTGCCCCAGCGGCCCAAGAAAAGGGCTAAGAACGTGGACAAGACCCTCCAAgtattaaacgcctgccctgagatcgatttgatcctctatttctaacccgatttccaaatcgatctctgctctcaaaacttaacatgtgctcttcccccttgatttttatcatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC