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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataatttagcttaagctaattttgtagagaaaattgcatgtgtgtatggtatcgctaatcatgtttgctattttgttttctag

Basic information

species Zea mays
transcript GRMZM5G824405_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataatttagcttaagctaattttgtagagaaaattgcatgtgtgtatggtat----cgctaatcatgtttgctat--tttgttttctag
|||||| | |||||||| ||||||||||||||||| ||||| |||||||| || || |||||||||||||||||||||||||||||||||||||||||||||   | | ||||||||||  || | || |  |  ||||   | |  |||||||    | |||||||||||| ||    |||   || |||
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaat-agcttaagctgtttctttatatga--ttgctcatattcatggtattagccactaatcatgttttcttacgtttcaattgtag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA02G39390.1 (Glycine max), 5'ss of exon 7
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataatttagcttaagctaattttgt-agagaaaattgcatgtgtgtatggtatcgctaatcatgtttgctattttgttttctag-------------------------
||  |  | ||||||||||| ||||| |  || ||||||||||||||||||||||| ||||||||||||||| | || ||||||||||||||||| |||||  |  |    ||| |   | | || | ||  |  | |     ||| | |  |       |  |  | ||  |  ||    | ||                          
GTGAGTTTGCCAGCTCGAGGCAAGACTTACACTGCAGCTAAACTTACAAGATATCTTCGATGGTTAGGTCATAATACCAAACACTTCAATGTTGGTAAGgttgttctcattcttgactcattcttcttagtaatcagtagtcttgtatctaatggaagacaggaaatatgtcaagtttgaatttaacaaaacttatgtttcaatgttgcag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA18G06770.1 (Glycine max), 5'ss of exon 9
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataa-----tttagcttaagctaattttgtagagaaaat-tgcatgtgtgtatggtatcgctaatcatgtttgctattttgttttctag-------------------------------
|| || || ||||| |||||||| || || || ||||||||||||||||||||||| ||||||||||||||| | || ||||||||||||||||| |||||  |        ||| | | |   |  | | ||   ||||| | | |     ||  |     ||    || | | | | | ||   | |                                 
GTGGGTCTGCCAGCCCGAGGTAAAACTTTCACTGCAGCTAAACTTACAAGATATCTTCGATGGTTAGGTCATAATACCAAACACTTCAATGTTGGGAAGgttgttcacattcttaacatcattcatctgtttaatcaaaatatacttcgacctagtgcgaaactggaaatatgt-caagtatgaactatgaagattaacccacttatttttggatgtcacag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA14G37520.3 (Glycine max), 5'ss of exon 7
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataatttagcttaagctaattttgtagagaa--aattgcatgtgtgtatggtatcgctaatcatgtttgctattttgttt---tctag------------------------
||  |  | ||||||||||| ||||| |  || ||||||||||| ||||||||||| ||||||||||||||| | || ||||||||||||||||| |||||  |       ||| |   | | || |    ||  |||    |   |||||  || ||  |  || |     | |   ||||   | ||                         
GTGAGTTTGCCAGCTCGAGGCAAGACTTACACTGCAGCTAAACTAACAAGATATCTTCGATGGTTAGGTCATAATACCAAACACTTCAATGTTGGTAAGgttgttcacattcttgactcattcttcttagtaatcaatcatcttgttgtatc-taacgaaaggcaggaaatatgtcaagtttgaatttaacacacttatgtttcaatgttgcag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA11G27410.1 (Glycine max), 5'ss of exon 13
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtg---------------ataattta---gcttaagcta---attttg---tagag-aaaattgcatgtgtgtatggtatcgctaatcatgtttgctattttgttttctag---------
|| || || |||||  ||||||| || || || ||||||||||||||||||||||| |  |||||||||||| | || ||||||||||||||||| |||||                || ||| |   | |||| | |   | || |   ||| | |||| || |  | |||   ||||     || | | ||       |  ||| | |         
GTGGGTCTGCCAGCCAGAGGTAAAACTTTCACTGCAGCTAAACTTACAAGATATCTTCATTGGTTAGGTCATAATACCAAACACTTCAATGTTGGGAAGgttgtttacattcttaacatcattcatctgtttaatcaatatacttcgacctagtgcaaaactggaaatatgtcaagtatgaactatgaagattaacccacttatttttggatgtcacag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA11G27870.1 (Glycine max), 5'ss of exon 8
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtg---------------ataattta---gcttaagcta---attttg---tagag-aaaattgcatgtgtgtatggtatcgctaatcatgtttgctattttgttttctag---------
|| || || |||||  ||||||| || || || ||||||||||||||||||||||| || |||||||||||| | || ||||||||||||||||| |||||                || ||| |   | |||| | |   | ||||   ||| | |||| || |  | |||   ||||     || | | ||       |  ||| | |         
GTGGGTCTGCCAGCCAGAGGTAAAACTTTCACTGCAGCTAAACTTACAAGATATCTTCGTTGGTTAGGTCATAATACCAAACACTTCAATGTTGGGAAGgttgtttacattcttaacatcattcatctgtttaatcaatatactttgacctagtgcaaaactggaaatatgtcaagtatgaactatgaagattaacccacttatttttggatgtcacag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 5'ss of exon 7
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataatttagcttaagctaattttgtagagaaaattgcatgtgtgtatggtatcgctaatcatgtttgctattttgttttctag--------------------
|||||  | || |||||||| ||||| ||||| ||||| ||  | ||||||||||| || ||||| || ||||| || ||||| || |||||||||||||| |    ||   ||    | ||| |  |       | || | |   | |  |  ||| |  | |||| |  |  |||  |   |                     
GTTGGCTTGCCTGCTCGAGGAAAGACTTTTACTGCAGCAAAGTTGACAAGATATCTACGCTGGTTGGGACATGATACTAAACATTTTAATGTTGGAAAGgttagctattttgttgcaatgattcttgattttttttagcttat-cctgtcattacgcgacccttgttggaaagattgactcaaacattgctccgtttctttgcag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 5'ss of exon 7
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataatttagcttaagctaatt--ttgtagagaaaattgcatgtgtgtatggtatcgctaatcatgtttgctattttgttttctag
|||||  | |||||||||||||| || ||||| ||||||||||||||||||||||| || ||||| |||||||| || ||||||||||||||||||||||||||   |    ||||  | |||  |   ||    |||       |||      || | ||    | || | | |            
GTTGGCTTGCCAGCTCGAGGTAAAACTTTTACTGCAGCTAAACTTACAAGATATCTTCGCTGGTTGGGTCATGAGACCAAACACTTCAATGTTGGAAAGgtgatttatatttttaaagttattcatcacagctctaatcattgaagtgaggaagattgatatgacttttggttgtaacag-------

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: PP1S414_24V6.1 (Physcomitrella patens), 5'ss of exon 7
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtga---taatttagc-ttaagctaa----ttttgtagagaaaattgcatgtgtgtatggtatcgctaatcatgtttgctatttt------gttttctag------------------------------------
|||||| |||| || ||||| ||||| ||||| ||||| ||| | || ||||||||  | ||| |||| ||||| || |||||||||||||||||||| || |   || | |||| || ||| |     ||||        | | |||    || ||  |||      |  ||||| |  |  |      |||    ||                                    
GTTGGGTTACCTGCACGAGGCAAGACGTTTACGGCAGCAAAATTGACGAGATATCTTAGGTGGCTAGGCCATGATACTAAACACTTCAATGTTGGAAAAgtaagcttattctagcatttagccacgggcttttcctataggattcgcaatgttggatcttatgaagggtgttgtttccggtcctctaaatgttacgcagggctatttgactgacttctttgttgtgatgaactag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: PP1S235_92V6.1 (Physcomitrella patens), 5'ss of exon 6
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtga--taatttagctta--agctaattttgtagagaaaattgcatgtgtg------tatggtatcgctaatcat-gtttgct--attttgttttctag-
||||| ||||| |||||||| ||||| |||||||||||||| || || ||||||||| | ||| | || ||||| || ||||||||||||||||||||||| |  | | |  ||| |  ||   |   || |   |  |||    |  |       | ||     |  | |||| || | ||   || || | | ||| 
GTTGGCCTACCTGCTCGAGGGAAGACTTTTACAGCAGCTAAGCTGACGAGATATCTCAGGTGGCTTGGCCATGATACCAAACACTTCAATGTTGGAAAGgtaagcttagtctgctcattagtagacagtgaaagtagtattttgagctttaactattgtgagggggacagtcattgtctacttggttctggtgtttagt

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: PP1S215_89V6.1 (Physcomitrella patens), 5'ss of exon 8
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgt---------gataattt-------agcttaagctaattttgtagagaaaattgca----tgtgtgtatggtatcgc--taatcatgtttgctat-tttgttttctag------------------------------------------------------------------------------------
|||||| |||| ||||| || ||||| || || ||||||||||| || |||||| | || |||||||||||||| || || |||||||||||||| |||||         || || ||       ||||   |  ||| || |  |   | ||       ||  || ||| | | |   | || || |||  | |      | ||||                                                                                     
GTTGGGTTACCGGCTCGTGGAAAGACATTCACTGCAGCTAAACTGACCAGATATTTGCGGTGGTTAGGTCATGACACCAAGCACTTCAATGTTGGCAAGgtatgtttttagaaaactttgtacgcagctggtgtcaatcttctcaacttatttcttgttttggttgcatgattttgggatgattatattttgtgtacccaatatctaaggtgctctttcaggttttagccttagagtgcacactttttgcagtggagtattttgatgcgattgtgcttttgatgtttcacag

upper sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
lower sequence: EFJ07288 (Selaginella moellendorffii), 5'ss of exon 3
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtga-taatttagcttaagctaattttgtagagaaaattgcatgtgtgtatggtatcgctaatcatgtttgctattttgttttctag
|| ||  |||||||  | || || || || || || |  || || ||||||||||| || ||| | |||||||| || ||||||||||| |||||||| || | | | | |  ||  | |  | ||| || |      |  | |  || || | |  || | ||                      
GTGGGCTTACCAGCAAGGGGGAAAACTTTCACTGCTGTCAAGCTAACAAGATATCTTCGTTGGCTTGGTCATGACACTAAACACTTCAACGTTGGAAAAgtcagtcagtcacttt--gtttgtcttgaagggctctcaggtttttggtgtgatttttcttaccag---------------------

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|19437252|gb|BM953662.1|BM953662
EST:     GATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAG                         TACCGCCGGCTCAAGCATGGAACTAATCAG
genomic: GATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataattt ... tgttttctagTACCGCCGGCTCAAGCATGGAACTAATCAG
EST: gi|22491067|gb|BU050990.1|BU050990
EST:     GATATCTCCGATGGTTAGGTCATGAAACAAACCTCTTCAATGTTGGAAAG                         TCCCGCCGGCTCAAGCATGGAACTAATCAG
genomic: GATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataattt ... tgttttctagTACCGCCGGCTCAAGCATGGAACTAATCAG