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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGTGTCAGCATTTGCTCCAATTGCCAATCCGATAAACTGCCCTTGGGGTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcctcttgaaagaccacttatatctgaggcgtgttggatacttataagtgcctgatttgtgtag

Basic information

species Zea mays
transcript GRMZM2G046558_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G046558_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g71300.1 (Oryza sativa), 5'ss of exon 5
TCGGTGTCAGCATTTGCTCCAATTGCCAATCCGATAAACTGCCCTTGGGGTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgta-ttctcctcttgaaagaccacttatatc----tgaggcgtgttggatacttataagtgcctgatttgtgtag-----------------------
|||||||| |||||  ||||  ||| |||||| || |||||||||||||||||||||||||||||||| ||  ||||| || |||||||||||||| ||||| |||  || | || | |  |  | | ||    | || | |       ||      |  |  | | |   |                         
TCGGTGTCTGCATTCTCTCCGGTTGTCAATCCAATCAACTGCCCTTGGGGTCAGAAAGCATTCTCAAACTATTTGGGCCCAGCTAAATCAGATTGGAAGgtaattcctctgtagagacaaaatctctctcttgctcagtccttcacctcaccctcgtggcctcgctctccctcacacattgttgtacctaactgcag

upper sequence: GRMZM2G046558_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G33350.1 (Glycine max), 5'ss of exon 5
TCGGTGTCAGCATTTGCTCCAATTGCCAATCCGATAAACTGCCCTTGGGGTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcctcttgaaagaccacttatatctgaggcgtgttggatacttataagtgcctgatttgtgtag--------------
|| || || || ||||||||||| || ||||| ||||| || |||||||| ||||| |||||||||||||| || ||    | |||||| || |||||||||   |  | | |  | ||  | | |        | |      |  | |||  |   |    |  | ||              
TCAGTTTCTGCCTTTGCTCCAATAGCAAATCCTATAAATTGTCCTTGGGGACAGAAGGCATTCTCAAATTATCTTGGTGACAATAAATCTGAGTGGGAGgtaaattaat-tggggaaactgcatgttcgccttacttaacaagtcttaatatttcattataattagaagttgaaataatgcag

upper sequence: GRMZM2G046558_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA10G15910.1 (Glycine max), 5'ss of exon 5
TCGGTGTCAGCATTTGCTCCAATTGCCAATCCGATAAACTGCCCTTGGGGTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattc-tcctcttgaaagaccacttatatctgaggcgtgttggatacttataagtgcctgatttgtgtag-----------------
|| || || || ||||||||||| || ||||| ||||| || |||||||| ||||| |||||||||||||| || ||    | |||||| ||||||||||||||  |    | |  | ||  | | |        | |   || | ||||  | | | |  | |    ||                 
TCAGTTTCTGCCTTTGCTCCAATAGCAAATCCTATAAATTGTCCTTGGGGACAGAAGGCATTCTCAAATTATCTTGGTGACAATAAATCTGATTGGGAGgtattaattaaatggggaaactgcatgttcgctttacttaacgggt-cttaatatttcatattataataagaagttgaaaaactgcag

upper sequence: GRMZM2G046558_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv08s0007g09010.t01 (Vitis vinifera), 5'ss of exon 5
TCGGTGTCAGCATTTGCTCCAATTGCCAATCCGATAAACTGCCCTTGGGGTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct------cttgaaagac---cacttatatctgaggcgtgttggatact---tataagtgcctgatttgtgtag-----
|| |||||||||||||| |||||||  ||||| || ||||| || ||||| |||||||| ||| |||| || || ||    | |||  ||||||||||||||   ||        ||| ||| |     | || ||| |    | | ||  |   |   ||| ||      || | |         
TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGCCAGAAAGCTTTCACAAACTATCTAGGAGGCAATAAGGCAGATTGGGAGgtaacatctcaaatggcttaaaaaaaacataattttatttattacatcttcaaagttaaatatgagaaatgaatctttaacttgcag

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|30591380|gb|CD052344.1|CD052344
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGAT-GGGAA                         GAATATGACGCAACCTGCCTGATTAAAA
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAA
EST: gi|60400942|gb|DN233749.1|DN233749
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAG                         GAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
EST: gi|60400756|gb|DN233563.1|DN233563
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAG                         GAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
EST: gi|60400609|gb|DN233416.1|DN233416
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAG                         GAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
EST: gi|6194555|gb|AW146659.1|AW146659
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAG                         GAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT