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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgtgtagagttttatcactatgacttctgcattgttgatcaaagtttggcaatgccttcctgatttcaccgcag

Basic information

species Zea mays
transcript GRMZM2G135359_T04
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgtgtagagttttatcactatgacttctgcattgttgatcaaagtttggcaatgccttcctgatttcaccgcag
|||||||||||||||||||| |||||||||||||| || ||||||||||||||||| |||||||||||||||||||| |||||||||||| |||| ||||||||| |  ||  |||||    | ||    ||   |   |||  |   |      |   || ||| | ||||||         ||   ||||| | |  | |  |  ||||   |                  
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtg--ttcttgtca--gttatcatgattctcttcatcatcatgtccagaaattgtcg-gtacatttttat---------ttgaacattggtca--agatatcagcaacctca-----------------

upper sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA18G06670.1 (Glycine max), 5'ss of exon 7
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgc-gttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgtgtagagttttatcactatgactt-ctgcattgttgat-caaagtttggcaatgccttcctgatttcaccgcag
||| | ||  |  |||| || ||||| ||  |  | || || || ||  ||||||| ||||| |||||||||||||| || || ||||||||||| ||  || ||  | ||| |  |||  | || |    || |||     |||| || |||  || |      ||| |  |  ||   | || | | || || ||| |  | | ||  |                         
TTTGTAAATCTTATTGGATATTGTGAAGAGAATAAGCCATTCACAAGGATGATGGTTTTTGAGTATGCTCCAAATGGAACCCTATTTGAGCATCTACACAgtgagtactgttacattcaaaacttgcatgattacatt----acaagaa-tgtgtttta------agaatcattgcaacctaacatgcagcctttttggtgtatacttctg-------------------------

upper sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G39470.1 (Glycine max), 5'ss of exon 10
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcg-cgttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgt-gtagagttttatcactatgacttctgcattgttgatcaaagtttggcaatgccttcctgatttcaccgcag
||| ||||  |  |||| || ||||| ||  |  | || ||  | ||| |||||||  |||| |||||||||||||| ||||| ||||||||||| ||  || || | | ||    |||  | || || |    ||||    || | | |     || |   |   ||  |  || ||   | |||||| ||      |  |||                               
TTTGTGAATCTCATTGGGTATTGTGAAGAGAATAAGCCATTCTCAAGAATGATGGTGCTTGAGTATGCTCCAAATGGAACACTATTTGAGCATCTACACAgtgagtgacattttgatcaaaatttactaa----catccacaaccatatcctcctttgattattacaggctcatagcaacctaacttcttcaaccagaagtaaa-------------------------------

upper sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA11G29010.1 (Glycine max), 5'ss of exon 7
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgttgctgtcatgagtttctcagtttcatc-tgtcacaaaaactgttcttcagcgtgtagagttttatcactatgacttctgcattgttgatcaaagtttggcaatgccttcctgatttcaccgcag
||| ||||  |  |||| || ||||| ||  |  | || || || ||  ||||||| ||||| |||||||||||||| || || ||||||||||| ||  ||||| ||  |  |||    | ||     |    ||    |||||   | ||||||| |        |   ||    |    | | | |  || ||| |  |   |                            
TTTGTGAATCTTATTGGATATTGTGAAGAGAATAAGCCATTCACAAGGATGATGGTTTTTGAGTATGCTCCAAATGGAACGCTATTTGAGCATCTACACAgtaagtgctgttttgttcaaaattcacttgcaagattgcatcacacgca-tgttctttaa-----gaatcattgcagcctaaaatgcagttttcttggtgtatcct----------------------------

upper sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G43150.1 (Glycine max), 5'ss of exon 9
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgtgtagagttttatcactatgacttctgcattgttgatcaaagtttggcaatgccttcctgatttcaccgcag
||| | ||  |  |||| |||||||| |||||| |||| || ||||||||| |||| ||||||||||| ||||| || ||||| ||||||||| | ||  |||||  |  |    |  |    |  | |  | ||      | |||  ||       | |    | | | ||   |  ||   |  |  ||| ||     || |||    |                      
TTTGTCAATCTTATTGGATACTGTGAAGAAGAGGATCCTTTCACCAGAGTGTTGGTTTTTGAATATGCCCCAAACGGAACACTATTTGAGCATTTACACAgtaagtactgtatcattttagagtaatta-ctgcactaaggagaaaggct-------aaca-acacactctttctagcata--tggtcaattattagctgaaatttattga----------------------

upper sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA14G37630.1 (Glycine max), 5'ss of exon 8
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgtgtagagttttatcactatgacttctgcattgttgatcaaagtttggcaatgccttcctgatttcaccgcag
||| ||||  |  |||| || ||||| ||  |  | || ||  | ||| ||||||| ||||| || ||||||||||| ||||| ||||||||||| ||  || ||     |  ||     | || || |  | || | | || |    |  ||  | |   |  ||  |  || ||   | |||||| ||     | |   ||                              
TTTGTGAATCTTATTGGGTATTGTGAAGAGAATAAGCCATTCTCAAGAATGATGGTGTTTGAGTACGCTCCAAATGGAACACTCTTTGAGCATCTGCACAgtgagtaacattttgatcaaatttacttacatcca-cagccatatcctcctttgattat--tacaggctaatagcaacctaacttcttcaaccaggctgtgag------------------------------

upper sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA14G06230.1 (Glycine max), 5'ss of exon 8
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgtgtagagttttatcactatgacttctgcattgttgatcaaagtttggcaatgccttcctgatttcaccgcag
||| ||||  |  |||| |||||||| |||||| | || || |||||| || |||| ||||||||||| ||||| || ||||| ||||||||||| ||  |||||     |    |  |    |    |  | |  |  | |  | || || |    | |    | | ||||   |  ||    | |  ||| |||  | || ||||   |                      
TTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATGCCCCAAACGGAACACTATTTGAGCATCTACACAgtaagtaatgtatcattttagagt----aactactacattaaggagaaatgct----aaca-acacactttttctagcata--ctgtcaattattggccgaaatttgttga----------------------

upper sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
lower sequence: Vv13s0067g01550.t01 (Vitis vinifera), 5'ss of exon 8
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgtgtagagttttatcactatgacttctgcattgttgatcaaagtttggc-aatgccttcctgatttcaccgcag
||| | ||| | || || || ||||| |||||| | || || |||||| ||||||| |||||||||||||| ||||| || |||||||||||| | ||| ||||||   |     || |    || ||| ||||     | | ||  ||| |  || |  ||  | |   | |  | ||| ||||  |||  |||  || |  ||  |   ||                     
TTTGTCAACCTTCTCGGATATTGTGAAGAAGAGGAACCTTTCACCAGAATGATGGTTTTTGAATATGCTCCGAATGGAACGCTTTTTGAGCATTTACATAgtaagc--atcaaattctttttcttatcattttc-----ttaaaaggactttaatttatggtcaaaa---tcagga-tataacttg-gcaa-gttactctatattcagttgat---------------------

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|211161244|gb|FL160685.1|FL160685
EST:     GATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATG                         TCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG
genomic: GATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgt ... ttcaccgcagTCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG
EST: gi|78117674|gb|DV536061.1|DV536061
EST:     TTTTTGAGCATCTCCATG                         TCAGGGAAGCAGAGAAGCTTGATTGGATGGCAGGGCTCAGGATATCCATGG
genomic: TTTTTGAGCATCTCCATGgtaagcgcgt ... ttcaccgcagTCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG
EST: gi|149070911|gb|EE159318.2|EE159318
EST:     ATGGTATTTGAATATGCTCCAAATGGGGACACTTTTTGAGCATCTCCATG                         TCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG
genomic: ATGGTATTTGAATATGCTCCAAAT-GGGACACTTTTTGAGCATCTCCATGgtaagcgcgt ... ttcaccgcagTCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG
EST: gi|76012816|gb|DT939986.1|DT939986
EST:     GATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATG                         TCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG
genomic: GATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgt ... ttcaccgcagTCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG
EST: gi|211162831|gb|FL160688.1|FL160688
EST:     GATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATG                         TCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG
genomic: GATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgt ... ttcaccgcagTCAGGGAAGCAGAGAAGCTTGACTGGATGGCACGGCTCAGGATATCCATGG