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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcatttgtagtttgcagtctgagtttttttttcctgcttcattcctgggatttgagaaataataattaacatcacaataattgtgaacttgcttttaagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC

Basic information

species Zea mays
transcript GRMZM5G819212_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G819212_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g15970.5 (Oryza sativa), 3'ss of exon 2
gtaagttcatttgtagtttgcagtctgagtttttttttcctgcttcattcctgggatttgagaaataataattaacatcacaataattgtgaacttgc-ttttaagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
                                          ||| |  ||| | ||||  |    |  ||| |    |       ||| |  ||||| |||| | | |||  | || ||| ||||| ||        || || ||||  ||||||||||||||||||||| |||||||| ||||||||||| ||||| |||||||||||||||||||||||||| || ||||||  ||| ||||||| ||||||| |
-----------------------------------------tcttaaacccttgtatttatgtg-cagcaatcattggcc------ttgcgcccttgccttttgatatcaa--ctatatctctatagctt--------gctctcctttatgtgaacagGAGAAATATCACCCTTACTACCCTCAAGCTGCCGTTATGTGCCAACTTGCAGTGAGTACTCTATGCAAGCATACAAAAAATACGGTGTTGCAAAGGGTAC

upper sequence: GRMZM5G819212_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g15970.4 (Oryza sativa), 3'ss of exon 3
gtaagttcatttgtagtttgcagtctgagtttttttttcctgcttcattcctgggatttgagaaataataattaacatcacaataattgtgaacttgc-ttttaagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
                         ||||||  || || ||| ||   || |      |   |  ||         ||||      ||| |  ||||| |||| | | |||  | || ||| ||||| ||        || || ||||  ||||||||||||||||||||| |||||||| ||||||||||| ||||| |||||||||||||||||||||||||| || ||||||  ||| ||||||| ||||||| |
------------------------gtgagttcattcttgctgttttcatcttaaacccttgtatttatgtgcagcaatcattggccttgcgcccttgccttttgatatcaa--ctatatctctatagctt--------gctctcctttatgtgaacagGAGAAATATCACCCTTACTACCCTCAAGCTGCCGTTATGTGCCAACTTGCAGTGAGTACTCTATGCAAGCATACAAAAAATACGGTGTTGCAAAGGGTAC

upper sequence: GRMZM5G819212_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g47930.1 (Oryza sativa), 3'ss of exon 3
gtaagttcatttgtagtttgcagtctgagtttttttttcctgcttcattcctgggatt-tgagaaataataattaacatcacaataattgtgaacttgc-ttttaagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
                         | ||||  || || ||| ||   || ||   || || | |  ||| |||  | |         || |  ||||| |||| | | |||  | || ||| ||||| ||        || || ||||  |||||||||||||||||| || |||||||| ||||||||||| ||||| |||||||||||  ||||||||||||| || ||||||  ||| || |||| ||||||| |
------------------------gtaagttcattcttactgttttcatcttgtatttatgtgcagcaatcattggcct---------tgcgcccttgccttttgatatcaa--ctatatctctatagctt--------gctctcctttatgtgaacagGAGAAATATCGCCCTTACTACCCTCAAGCTGCCGTTATGTGCCAACTTGCAGCCAGTACTCTATGCAAGCATACAAAAAATACGGCGTTGCAAAGGGTAC

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|211094336|gb|FL133038.1|FL133038
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|78074191|gb|DV502625.1|DV502625
EST:     GATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: GATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|87156647|gb|DY401436.1|DY401436
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|21809854|gb|BQ668172.1|BQ668172
EST:     GCTAAAATTTTACAAAC                         GAGAAATATCCCCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: GCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|22521085|gb|BU079896.1|BU079896
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|26557890|gb|CA830125.1|CA830125
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|21809855|gb|BQ668173.1|BQ668173
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|21331586|gb|BQ486967.1|BQ486967
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|87156978|gb|DY401767.1|DY401767
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|21389849|gb|BQ527898.1|BQ527898
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
EST: gi|26559014|gb|CA831249.1|CA831249
EST:     CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC                         GAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA
genomic: CAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAACgtaagttcat ... gcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaacaatcccatttctatatagattaatcatcagccctgctttgcgtgaacagGAGAAATATCACCTTTACTACCTTCAAGCTGCCGATATGTACCAACTTGCAGTGAGTACTCTATGCAGGCGTACAAACGATATGGTGTTGTAAAGGGTTC
                       gattaat  putative branch site (score: 3)
            atttctatatagatta  TA-rich tract