Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcagagggagaatcagcatccgagagaaaggcaaacagcaaaaaacatgatatgaacttttttttatgtttcactgatcactgatgtcgtcgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA

Basic information

species Zea mays
transcript GRMZM2G080375_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G080375_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g09570.1 (Oryza sativa), 3'ss of exon 1
tcagagggagaatcagcatccgagagaaaggcaaacagcaa-------aaaacatgatatgaacttttttttatgtttca-ctgatcac----tgatgtcgtcgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
            |||   || | | |  | ||    |   |         |  ||  | |  ||    |||  ||   || ||| ||||    |  ||| |  ||||||||||| |||||||||||||| |||||||||||||| ||||||||||||||
------------tcaatttctgtgggcgatgcgcctactgattgagctgcagtatcgttttgaccccatttcttgaagcaactgctcacctgctactgttgctgatctgcagACTTACCCGAATCCTCTGCAAGACAACCCGGCTTATTCAGTCGTCAA

upper sequence: GRMZM2G080375_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G00870.1 (Glycine max), 3'ss of exon 1
-tcagagggagaatcagcatccgagagaaaggcaaacagcaaaaaacatgatatg-aacttttttttatgtttcactgatcactgatgtcgtcgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
    |  | || |  | |||  ||  || |    |    ||     | |    || ||  ||  || |||| | | |  |   |  ||  ||    |||||||||||||| |||||| | ||||||||||| || |||||||| || ||
acatgcagtaggaaaaacata-gatggataatgtattgccattttcctttgagtgcaagattaattaatgtctgattt-tatgtattggtgtgttgctgcagACATACCCTAATCCTTTGCAAGACAACCCTGCTTATTCAGTTGTTAA

upper sequence: GRMZM2G080375_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 1
tcagagggagaatcagcatccgagagaaaggcaaac--agcaaaaaacatgatatgaacttttttttatgtttcactgatcactgatgtcgtcgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
  |   |||| |  | |||    ||  || | |     |          ||     ||  ||  || |||| | | |  |   || ||  ||    |||||||||||||| |||||| | ||||||||||| || |||||||| || ||
-taagaggaggaaaaacatagatgaataatgtatctttaatttttcctttgggtacaagattaattaatgtctgattt-tatgtgttggtgtgttgctgcagACATACCCTAATCCTTTGCAAGACAACCCTGCTTATTCAGTTGTTAA

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|74234373|gb|DT642287.1|DT642287
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|211522284|gb|FL320492.1|FL320492
EST:     ACGTGCTCGAGGACGTACCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|148940563|gb|EC885365.2|EC885365
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|211143668|gb|FL321938.1|FL321938
EST:     ACGTGCTCGAGGACGTACCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|149076118|gb|EE164702.2|EE164702
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|148941151|gb|EC886025.2|EC886025
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|18661967|gb|BM501673.1|BM501673
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|76914829|gb|DV165709.1|DV165709
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|37416938|gb|CF646120.1|CF646120
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|149087521|gb|EE176918.2|EE176918
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|76290797|gb|DV030365.1|DV030365
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|149069151|gb|EE157880.2|EE157880
EST:     ACCTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGGCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|149111238|gb|EE294735.2|EE294735
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|76913985|gb|DV165359.1|DV165359
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|78078027|gb|DV506442.1|DV506442
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
EST: gi|148935767|gb|EC879810.2|EC879810
EST:     ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCG                         ACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
genomic: ACGTGCTCGAGGACGTGCCGCACCTCACGGATTACATGCCCCAGCTCCCGgtgcgttcga ... cgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgatatgaacttttttttatgtttcactgatcactgatgtcgtcgatctgcagACATACCCGAATCCTCTCCAAGACAACCCGGCGTATTCAGTCGTCAA
                                 cactgat  putative branch site (score: 3)
     tatgaactttttttta  TA-rich tract