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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattacactttgctctgctttcgattgatgtctgaaagtgcaagggtctaaaatcagtataacttaggtgttggtagaacattttattgtaccata...

Basic information

species Zea mays
transcript GRMZM2G162409_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G162409_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os07g25710.4 (Oryza sativa), 5'ss of exon 6
GAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattacactttgctctgctttcgattgatgtctgaaagtgcaagggtctaaaatcagtataacttagg-tgttggtagaacattttattgtaccata------
||  |||||||||||||| ||| |  | |||||||| ||||| |||||| ||||||||||||||||||||||| | |  ||   |  |    | |   || |||  | | | | |     ||| |||  |   |     |||   ||||||  | | || |   ||   ||      
GAACTTTGATCTCACTGAGGCATTGCGTCTCCAGTTAGAACTCCAAAAGAGGCTTCATGAACAGCTTGAGgta-tgtagcatactaatgaattgttt-ttcatgctttatatttct----tctgaaaggaaggtggggaagggctttggtatga-agttcagaataaagtaggcaag

upper sequence: GRMZM2G162409_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA19G35080.1 (Glycine max), 5'ss of exon 8
GAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattacactttgctctgctttcgattgatgtctgaaa-gtgcaagggtc-taaaatcagtataacttaggtgttggtagaacattttattgtaccata---
  || ||||  |||||||||| || ||||| ||| ||||  |||| |||||| | ||||||||||||||||||  |    ||| || |||  |    |||    |||||   || ||  | |  | |||  | || || || | | |     |  | |||    |   |||    
TGGTATTGAGATCACTGAAGCTCTGAGGCTGCAGATGGAGGTTCAGAAGCGGTTGCATGAACAGCTTGAGgtatga----actctgatcttttaggaatttccttctgatgtgttcattgattgttaaaagactagaaatttgat-tcaaaggctcgtttgcaagctgcatttct
















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|116813408|gb|EC855859.1|EC855859
EST:     CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG                         ATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
genomic: CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattac ... tggaatttagATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
EST: gi|9742722|gb|BE518870.1|BE518870
EST:     CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG                         ATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
genomic: CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattac ... tggaatttagATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
EST: gi|37386226|gb|CF630297.1|CF630297
EST:     CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG                         ATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
genomic: CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattac ... tggaatttagATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
EST: gi|51592708|gb|CV071854.1|CV071854
EST:     CACTTAGGCTTCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG                         ATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
genomic: CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattac ... tggaatttagATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
EST: gi|13149966|gb|BG320288.1|BG320288
EST:     CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG                         ATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
genomic: CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattac ... tggaatttagATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
EST: gi|71426491|gb|DR807541.1|DR807541
EST:     CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG                         ATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG
genomic: CACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAGgtactattac ... tggaatttagATACAAAGAAGTTTGCAGCTAAGAATCGAGGAACAAGGGAAGTGTCTTCAG