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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacatgttccttggagagtgagaaaccaatccatactttatagatttgtatgcaccatccatattgttacttgcactctactcatcaccagccacaatcatttattctgttcag

Basic information

species Zea mays
transcript GRMZM2G145029_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G145029_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g34180.1 (Oryza sativa), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacatgttcct----tggagagtgagaaaccaatccatactttatagatttgtatgcaccatccatattgttacttgcact-ctactcatcaccagccacaatcatttattctgttcag
|||||||| ||||||||||||||||||||||||||||||||||| ||||||||||| ||||| ||||||||||| ||| | ||||| || ||  |   ||||| ||  || | |||    || |  | ||      ||     |    |||  | | | |||||  || ||  || |     |  | |||   |  || ||   | |   | ||||        
AGGTCTGCTACAAAAGTGACATTTCCACTTGTCTGGACAAACACTTGCTGTAGCCACCCTCTATACCGCGAGTCCGAGCTCATTGAAGATAAAAGCCTAGgtacatctatctacctgccctgaaatgagaactgtgaaaaacaaagccatacctatctttgcactgtctatgctgctctccaccttactaaataatacaagttgctacgttgtatttcag----

upper sequence: GRMZM2G145029_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA18G47770.1 (Glycine max), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatac-atgttccttggagagtgagaaaccaatccatactttatagatttgtatgcaccatccatattgttacttgcactctactcatcaccagccacaatcatttattctgttcag
 | |||||||| || || ||||| || ||||| |||||||||||||| || |||||||| || ||||| || || ||| | ||||| || |||      |||||||||  ||| ||||  | | |     |   | | |||         |||||     |   |  | |  |||||| | | | |||    |  | |                      
CGATCTGCAACCAAGGTAACATTCCCTCTTGTGTGGACAAACACCTGTTGCAGCCATCCACTGTACCGTGAATCTGAGCTTATTGATGAGAATGCCCTTGgtatatactgtgtaccttttatatttgttcaaacaactatatcaatctactttgtcattgctg-ctttttgtttactttccccccactttgtatgaccag--------------------

upper sequence: GRMZM2G145029_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA09G38550.1 (Glycine max), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatac-atgttccttggagagtgagaaaccaatccatactttatagatttgtatgcacca-tccatattgttacttgcactctactcatcaccagccacaatcatttattctgttcag
 | ||||||||||| || || || || ||||| |||||||||||||| |||||||||||||| ||||| || || ||| | ||||| || |||      |||||||||  ||| ||||  | | |     |     | |||         |||||     |   |   ||||  |  || | | ||    || |||||                       
CGATCTGCAACAAAGGTAACTTTCCCTCTTGTGTGGACAAACACCTGTTGTAGCCATCCTCTGTACCGTGAATCTGAGCTTATTGATGAGAATGCCCTTGgtatatactgtgtaccttctataattgttcaaatgactatataaatctactttgtcattgctgctttttatttattttttcccactttgtattaccag-----------------------

upper sequence: GRMZM2G145029_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0023g00600.t01 (Vitis vinifera), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacatgttccttggagagtgagaaaccaatccatactttatagatttgtatgcaccatccatattgttacttgcactctactcat-caccagccacaatcatttattctgttcag
|||||||| ||||| |||||||| ||  | || ||||||||||||||||| ||||||||||| ||||| || |||||| | ||||| || |||      ||||| | ||| ||| ||      |  |||  | ||  || |||| |           ||| ||   | || ||| |||   | |  |||| ||| | |||                    
AGGTCTGCCACAAAGGTGACATTCCCTTTGGTGTGGACAAACACCTGCTGCAGCCATCCTCTTTACCGTGAATCAGAGCTTATTGATGAGAATGCGCTTGgtat-tccattttctttcttcttttggaatgccatt-atgctttgt-----------cactatgacttttcttagttg---tttgttcattcactaaccag-------------------

upper sequence: GRMZM2G145029_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S28_399V6.1 (Physcomitrella patens), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacatgttccttggagagtgagaaaccaatccatactttatagatttgtatgcaccatccatattgttacttgcact-ctactcatcaccagccacaatcatttattctgttcag
 | || || || |||||||| ||||||||||| ||||| ||||| || || |||||||| || ||||| ||||| ||  | |||||||| || |     |||    |    |||     |       |||     |||        | |||  | |  |      ||| |||   ||| ||| |||  | |||| |  ||  ||| ||  |         
CGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGTTGCAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagca----ttctcaccattactcaaaattgtaccac------catattgctgtaaagtgcgtataatgtaggttgtactgctagacttcac-acacattatcgttagt---------

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|60355106|gb|DN222079.1|DN222079
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacat ... ttctgttcagGGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
EST: gi|148948633|gb|EC898545.2|EC898545
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacat ... ttctgttcagGGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
EST: gi|211523188|gb|FL353428.1|FL353428
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAACTGGGAATAGTTG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacat ... ttctgttcagGGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
EST: gi|148948634|gb|EC898546.2|EC898546
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacat ... ttctgttcagGGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
EST: gi|148930170|gb|EC872550.2|EC872550
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacat ... ttctgttcagGGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
EST: gi|8318714|gb|BE025279.1|BE025279
EST:     AGCCATCCTCTCTATTGTTGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAACTGGGAATAGTTG
genomic: AGCCATCCTCTCTACCG-CGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacat ... ttctgttcagGGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG
EST: gi|211035627|gb|FL437931.1|FL437931
EST:     CGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGKTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAACTGGGAATAGTTG
genomic: CGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatatacat ... ttctgttcagGGGTGAGAAATGCAGCCCAACGCAAACTATTTGATGAACTGGGAATAGTTG