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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagagtctacctttatatttctgtcatttaccatgatcctgtcagctgtctacatgatttatttcttgcacagaagtggctttaggtct...

Basic information

species Glycine max
transcript GLYMA12G06980.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagagtctacctttatatttctgtcatttaccatgatcc---tgtcagctgtctacatgatttatttcttgcacagaagtggctttaggtct--------
|||||||  |||   || |  | |||||||| ||||||||||| ||||| ||||| ||||| ||||| ||||||||  |||||||||| |||||   |  || ||     ||  | ||||  ||||| |  | | |  || |   |   |    | | ||||   | || ||   |   || ||| | ||             
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc-ta----ttatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgtt-ctgatatttaaatggatgtataatcatgtacag

upper sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G157772_T01 (Zea mays), 5'ss of exon 2
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagagtctacctttatatttctgtcatttaccatgatcctgtcagctgtctacatgatttatttcttgca-cagaagtggctttaggtct
||||||  ||||   |  |  | || ||||| ||||||||||| ||||| ||||| ||||| ||||| ||||||||  |||||||||| |||||  |  | | |     || | |      |  | |  |||  |||  |  |    | | |     |   | |||   || | |||                
ATGTCATCGAGCCGCTTCTTGTAGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAGgtatgc-tacatctctgctgcatgagaggtggtatatttt--catagtttttcttgatattggtgtttgtgattgtctgtaacag----------------

upper sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 4
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagagtctacctttat-atttctgtcat-ttaccatgatcctgtcagctgtctacatgatttatttcttgca-cagaagtggctttaggtct
||||||| ||||   |  |  | || ||||| ||||||||||| ||||| ||||| ||||| ||||| ||||||||  |||||||||| |||||  |      ||||       |  || |    ||  || ||  |||  |  |  | | | |     |   | |||   || | |||                
ATGTCACCGAGCCGCTTCTTGTGGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAGgtatgc-----tagatctctgttacatgagaggtggtatattttcatagtttttcctgatattggtgtttgtgattgtctgtaacag----------------

upper sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G300412_T01 (Zea mays), 5'ss of exon 11
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagagtctacctttat-atttctgtcat-ttaccatgatcctgtcagctgtctacatgatttatttcttgca-cagaagtggctttaggtct
||||||| ||||   |  |  | || ||||| ||||||||||| ||||| ||||| ||||| ||||| ||||||||  ||||| |||| |||||  |      ||||      ||  || |    ||  || ||  |||  |  |  | | | |     |   | |||   || | |||                
ATGTCACCGAGCCGCTTCTTGTGGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATATTCTACAAGCACAACTCTGTTAAGgtatgc-----tagatctctgctgcatgagaggtggtatattttcatagtttttcctgatattggtgtttgtgattgtctgtaacag----------------

upper sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G382038_T01 (Zea mays), 5'ss of exon 6
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagagtctacctttat-atttctgtcat-ttaccatgatcctgtcagctgtctacatgatttatttcttgca-cagaagtggctttaggtct
||||||| ||||   |  |  | || ||||| ||||||||||| ||||| ||||| ||||| ||||| ||||||||  ||||| |||| |||||  |      ||||      ||  || |    ||  || ||  |||  |  |  | | | |     |   | |||   || | |||                
ATGTCACCGAGCCGCTTCTTGTGGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACTCTGTTAAGgtatgc-----tagatctctgctgcatgagaggtggtatattttcatagtttttcctgatattggtgtttgtgattgtatgtaacag----------------

upper sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 5'ss of exon 4
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtggg----ggttcgtagagtctacctttatatttctgtcatttaccatgatcctgtcagctgtctacatgatttatttcttgcacagaagtggctttaggtct
|||| || || |   | ||  | ||||||||||||||||| ||| | ||||| || ||||||||||||||||||||||||||||| || |||||  |      |||||  | || |   |   |    ||  |  |   ||  |  | | |  | |   |||   |  |||    |     | ||||         
ATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAGgtttgttaaacttcgtt-aatcaaaactcgcaaaa-tgctagctgatatatttttatgacttatgatcatatatccttttcatctttctaatggcag-------

upper sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 4
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagag-tctacctttatatttctgtcatttaccatgatcctgtcagctgtctacatgatttatttcttgcacagaagtggctttaggtct
|||| || ||||  |||||||| ||||||||||  || || |||||||| || || || ||||| || |||||||||||||||||||| |||||  | ||   || || | ||   | ||||  |  |||| ||    ||  | || || |    |  | || | ||| | |||                   
ATGTTACCGAGCCTTTGTTGATCGAGGTTGATCGGATTTACCATCTTGCTTGTCCTGCCTCTCCTATCTTCTACAAATACAACCCTGTTAAGgttcgtgtgaatatagatatattctcatatcaccttcatataatcagaatc-gttagttactgatctaatatgtttat-gcag------------------

upper sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 5
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagagtctacctttatatttc--tgtcatttaccatgatcctgtcagc---tgtcta-catgatttatttcttgcacagaagtggctttaggtct
||||||| |||| ||||||||||||||||||| | || || || |||||||| || |||||||| ||||| || ||| |||| |||||||||||  |  |   ||   | ||| |||      |  | |  || |  || |     | |||   | | |  ||||  ||||||||    | ||  |||          
ATGTCACTGAGCCATTGTTGATTGAGGTTGATAAGATATACCACCTTGCATGTCCCGCTTCTCCTATTTTTTATAAACACAATCCTGTAAAGgttagtatatttatgctatacttttgctcaccaatatgcttcattatcagtgctttagcatatatttgtcatgtattatttctctatctgatttggacag------

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|208312127|gb|GE107347.1|GE107347
EST:     ATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAG                         ACAATAAAGACAAATGTGATTGGAACACTGAACATGCTTG
genomic: ATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttc ... acctttacagACAATAAAGACAAATGTGATTGGAACACTGAACATGCTTG
EST: gi|193540711|gb|FK494361.1|FK494361
EST:     AAATACAACCCTGTAAAG                         ACAATAAAGACAAATGTGATTGGAACACTGAACATGCTTGGTCTTGCTAAG
genomic: AAATACAACCCTGTAAAGgtgggggttc ... acctttacagACAATAAAGACAAATGTGATTGGAACACTGAACATGCTTGGTCTTGCTAAG
EST: gi|213606684|gb|DB959073.1|DB959073
EST:     ATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAG                         ACAATAAAGACAAATGTGATTGGAACACTGAACATGCTTGGTCTTGCTAAG
genomic: ATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttc ... acctttacagACAATAAAGACAAATGTGATTGGAACACTGAACATGCTTGGTCTTGCTAAG