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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGGTCTGATTTAGTTGCAGAGATGCCACTAAAGATATGCTATCCTGCTCTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagccttagatgttttttcaatttttaccctctacctgggatcatgttgcagttcctttttacatgcttggcaatttctttttcgtacag

Basic information

species Zea mays
transcript GRMZM2G040843_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040843_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g32730.1 (Oryza sativa), 5'ss of exon 5
AATGGTCTGATTTAGTTGCAGAGATGCCACTAAAGATATGCTATCCTGCTCTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagccttagatgttttttcaatttttaccctctacctgggatcatgttgcagttcctttttacat--gcttggcaatttctttttcgtacag
|||||||||||||||| |||||||||||| | |||||||||||||||||||| || |||||||||||||| ||||| ||||| |||||||| || || |||||||  || |   |  ||   || ||| |     | ||  |  ||||||  ||||||  |   |||   ||| | ||| ||| ||   | |||
AATGGTCTGATTTAGTGGCAGAGATGCCATTGAAGATATGCTATCCTGCTCTAGAGAACCAGGAATGGAAGATCATTACTGGAAGTGACCCAAAGAATACgtgagttttcggaataatt---atctttgc-----atctatgtacatgttcaagttccaatgagcatcttcttagtaatatctattg-attcag

upper sequence: GRMZM2G040843_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G15220.1 (Glycine max), 5'ss of exon 5
AATGGTCTGATTTAGTTGCAGAGATGCCACTAAAGATATGCTATCCTGCTCTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagccttagatgttttttcaatttttaccctctacctgggatcatgttgcagttcctttttacatgcttggcaatttctttttcgtacag---
||||||| ||||| || |||||||||||| | ||||| || ||||||||||||||    ||||| ||| | || ||||| || ||||| ||||| |||||||   |  ||  |  |||  |  | ||||   | |  |||  ||| | ||  | ||    |  |     ||    ||||  || |  |   |   
AATGGTCAGATTTGGTGGCAGAGATGCCATTCAAGATTTGTTATCCTGCTCTTGATGGTCAGGAGTGGCAGATAATCACAGGCAGTGATCCTAAGAACACgta--ctgtatctaatttgccg-tgtttatgtttt-tctgttatcttattatatttttcatcaaatgatttttttatttaattattttttggcag

upper sequence: GRMZM2G040843_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv13s0074g00720.t01 (Vitis vinifera), 5'ss of exon 6
AATGGTCTGATTTAGTTGCAGAGATGCCACTAAAGATATGCTATCCTGCTCTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagccttagatgttttttcaatttttaccctctacctgggatcatgttgcagttc--ctttttacatg---cttggcaatttctttttcgtacag
|||||   |||||||| ||||| |||||||| |||||||| || ||||||||||||   ||||||||| |||| ||||| || ||||| ||||| ||||||| ||  ||  || ||  | |   |  ||  |  |   |    |     |    ||    | ||| ||||   ||     ||| | ||||  | |||
AATGGGGAGATTTAGTGGCAGACATGCCACTGAAGATATGTTACCCTGCTCTTGAAGGTCAGGAATGGCAAATTATCACCGGTAGTGATCCTAAGAACACgtaagaattccatcttactgcctatgctattcctttttttttttttccctttgatttgattgttttcatgtcactattggattgcattttgatgcag

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|18166457|gb|BM336296.1|BM336296
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|13198364|gb|BG354284.1|BG354284
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|78073753|gb|DV502187.1|DV502187
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCCCAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|50327335|gb|CO522461.1|CO522461
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|67035329|gb|CO463862.1|CO463862
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|24934163|gb|CA452381.1|CA452381
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|148999776|gb|EE036786.2|EE036786
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|148956076|gb|EC901830.2|EC901830
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|211001916|gb|FL002816.1|FL002816
EST:     CTTGAAAACCAGGAATGGAAA-TCATCACTGGGAGTGACCCTAAAAACAC                         GC-TTGGTCATACCACAATGGNAG-ATCCCTG-CCNACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGG-AGGATCC-TGGCCAACATTACTGTGGCAG
EST: gi|149001133|gb|EE038394.2|EE038394
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
EST: gi|91048610|gb|EB159028.1|EB159028
EST:     CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACAC                         GCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG
genomic: CTTGAAAACCAGGAATGGAAAATCATCACTGGGAGTGACCCTAAAAACACgtgagcctta ... tttcgtacagGCCTTGGTCATACCACAATGGAGGATCCTGGCCAACATTACTGTGGCAG