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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACGGATTGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTAAGGAGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtaccaatcctactacttcgtcgtgccactgctatcacgagctgtcaaaagccagcctaaaatcatagtagtatgtgtttggctggttgacttggtgttcttttcgacag

Basic information

species Zea mays
transcript GRMZM2G464885_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G464885_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g40030.7 (Oryza sativa), 5'ss of exon 3
---------------------------------------------------------CACGGATTGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTAAGGAGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtaccaatcctactacttcgtcgtgccactgctatcacgagctgtcaaaagccagcctaaaatcatagtagtatgtgtttggctggttgacttggtgttcttttcgacag
                                                         ||  | |  | || |||||| |||||||||||||||| | ||| || ||||| || |||||| | ||||||||||| ||| | ||||||| ||| |||||||||| ||  |  |          |||  |  |   | | ||   ||||   |  |      ||| | |   |       |                                 
CAACGTCGCCGCCGGGCACAAGGCCCGCGAGGCGATCCGGGCGGAGATCCACGGCGCCATAG-TCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGgtgaggaggtttgcctccgagtttgactctctgaacctacctctcaacatactcatgtaagaacagaaacacgggtcaactcgaacagcgaatttaac---ctgtgctatactgattcaaacttacttttacgacag---------------------------------

upper sequence: GRMZM2G464885_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g40030.4 (Oryza sativa), 5'ss of exon 4
-CACGGATTGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTAAGGAGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtaccaatcctactacttcgtcgtgccactgctatcacgagctgtcaaaagccagcctaaaatcatagtagtatgtgtttggctggttgacttggtgttcttttcgacag
 ||  | |  | || |||||| |||||||||||||||| | ||| || ||||| || |||||| | ||||||||||| ||| | ||||||| ||| |||||||||| ||  |  |          |||  |  |   | | ||   ||||   |  |      ||| | |   |       |                                 
CCATAG-TCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaacagaaacacgggtcaactcgaacagcgaatttaac---ctgtgctatactgattcaaacttacttttacgacag---------------------------------

upper sequence: GRMZM2G464885_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g40000.1 (Oryza sativa), 5'ss of exon 1
-CACGGATTGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTAAGGAGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtaccaatcctactacttcgtcgtgccactgctatcacgagctgtcaaaagccagcctaaaatcatagtagtatgtgtttggctggttgacttggtgttcttttcgacag
 ||  | |  | || |||||| |||||||||||||||| | ||| || ||||| || |||||| | ||||| ||||| ||| |||| |||| ||| |||||||||| ||  |    | |||| | ||     |||  ||     ||   |  ||    |    |   || |   |  |    ||||  |  ||   |   |     |        
CCATAG-TCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGATTCTCTGAACCTGCCGCTCAACATACTCATgtaagaacaga----aatactccctccg--tacttataaagaaagtcatttaagaaaacgacacggtcttcaaaacacaactttgatttattatttctataaaaat--------

upper sequence: GRMZM2G464885_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g40020.1 (Oryza sativa), 5'ss of exon 5
CACGGATTGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTAAGGAGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaa--gtaccaatcctactacttcgtc-gtgc-cactgctatcacgagctgtcaaaagccagcctaaaatcatagtagtatgtgtttggctggttgacttggtgttcttttcgacag
|  | ||  | || |||||| |||||||||||||||| | ||| || |||||||| ||| || | |||||  |||| ||| | ||||||| ||| |||||||||  | |  ||||  |   |||| ||  |    ||| |   | |    |||        |||  |  ||     |   || ||    |  | ||||||   |              
CCGGTATCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGATTTGCCACCGAGTTTGAGGCTCTGAACCTACCTCTCAACATACTCATgtaagagcaagaatctgaacgcttcttctatatgtactccctcctccgtttgtt-----ttagcagatgatgccgtttacatttgacatgacgcttgactattta-------------

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|89762078|gb|DY689837.1|DY689837
EST:     AGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTTTCAT                         CAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCT
genomic: AGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtacca ... ttttcgacagCAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCT
EST: gi|71448014|gb|DR829064.1|DR829064
EST:     AGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCAT                         CAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCT
genomic: AGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtacca ... ttttcgacagCAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCT
EST: gi|71448013|gb|DR829063.1|DR829063
EST:     GATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTTCTCAT                         CAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCC
genomic: GATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATT-CTCATgtaagtacca ... ttttcgacagCAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCC
EST: gi|71433932|gb|DR814982.1|DR814982
EST:     AGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCAT                         CAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCT
genomic: AGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtacca ... ttttcgacagCAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCT
EST: gi|211448633|gb|FL092879.1|FL092879
EST:     AGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCAT                         CAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCT
genomic: AGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtacca ... ttttcgacagCAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCT