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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctattttgatattctgatggttttgattgccagaaggatc...

Basic information

species Glycine max
transcript GLYMA13G40960.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 5'ss of exon 8
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaat--tacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctattttgatattctgatggttttgattgccagaaggatc
| || || ||||| || || || ||||| ||||||||  | ||||| ||||||||||||||||||||||| |||||||||||||| ||  | |||||||  |   |||   |  |      ||    || | | |  |   |||  | ||| |    |||||| |||     ||  |||| |  |           
AGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACGgtaatgctcgctgaacttctttcaacattctctcaggttgtg-tccagttggtcctgga-gcttattttcatac----ataatttt-acag-----------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 5'ss of exon 9
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaat--tacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctattttgatattctgatggttttgattgccagaaggatc
| || || ||||| || || || ||||| ||||||||  | ||||| ||||||||||||||||||||||| |||||||||||||| ||  | |||||||  |   |||   |  |      ||    || | | |  |   |||  | ||| |    |||||| |||                             
AGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTgttagtaacttcattgctcaggccgtacggtaatgctcgctgaacttctttcaacattctctcaggttgtg-tccagttggtcctgga-gcttattttcata-----------------------------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 9
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatc-tattttgatattctgatggttttgattgccagaaggatc
|||| || ||||| || || || ||||| ||||||||| | ||||| ||||| ||||| |||||||||||||||||||||||||| ||  | |||||||   |      || | | ||||     || |||         |   ||  ||   |  |||||| ||  |||  | |                    
AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttgttgaattctttagtttcttccca-gcttctgccagatagttttggtggctaatattttcatgatcttgtag--------------------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G177373_T02 (Zea mays), 5'ss of exon 9
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctattttgatattctgatggttttgattgccagaaggatc
|||| || ||||| || || |||||||| ||||| ||  | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | |||||||   |||     | |    ||||| |   | || |   | |  | |   | |||       |  || || | |   | || |              
AAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgctttgttgaatgt---attttatt---ttctcttgagctactgcagatatattggcggct-aatcttttcacaatctttag-------------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G157772_T02 (Zea mays), 5'ss of exon 5
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatc-tattttgatattctgatggttttgattgccagaaggatc
|||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | |||||||   |||     | |||  | ||    | |    || ||  | ||  |  |    |  | |||| | | |||   |                     
AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgctttgttgaatgtcttttattttctcctcagctactgcagatagattggcggctaatcttttcacaatctttag---------------------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 8
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatc-tattttgatattctgatggttttgattgccagaaggatc
|||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | |||||||   |||     | |||  | ||    | |    || ||  | ||  |  |    |  | |||| | | |||   |                     
AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgctttgttgaatgtcttttattttctcctcagctactgcagatagattggcggctaatcttttcacaatctttag---------------------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G300412_T01 (Zea mays), 5'ss of exon 15
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctattttgatattctgatggttttgattgccagaaggatc
|||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | |||||||  |||   ||||   ||  ||| ||     |   |  | |  | |   | |||       |  || || | |   | || |              
AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaat-gctt---tgttgaatgtcttttattttctcctca--gctactgcagatatattggcggct-aatcttttcacaatctttag-------------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G382038_T01 (Zea mays), 5'ss of exon 10
AAATACGCATTGCAAGAATCTTTAACACATATGGACC-ACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctattttgatattctgatggttttgattgccagaaggatc
|||| || ||||| || || |||||||| ||||| || | | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | |||||||   |||     | |    ||||| |   | || |   | |  | |   | |||       |  || || | |   | || |              
AAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgctttgttgaatgt---attttatt---ttctcttgagctactgcagatatattggcggct-aatcttttcacaatctttag-------------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 5'ss of exon 8
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctattttgatattctgatggttttgattgccagaaggatc
|||| |||||||| |||||||| ||||| ||||| ||||||||||| || |||||||| |||||||| |||||||||||||| |||||||| |||| |   | |   || |   |      ||   ||  |||  |        |    ||    | | ||| |||| |  | ||  ||| | |          
AAATCCGCATTGCTAGAATCTTCAACACTTATGGTCCACGCATGAACATCGATGATGGCCGTGTTGTAAGCAACTTCATTGCACAAGCACTCCGgtga--gcctctttgctcaatccaacgaacaaattttattttccgagctataaattactcatctcttgttattgttcttgtcatgaatacttag------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: AT2G28760.3 (Arabidopsis thaliana), 5'ss of exon 7
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggtttt--aatgcatgctataatgttgttacttc--tgtatatctattttgatattctgatggttttgattgccagaaggatc-----------------------------------------
| |||||||| || || || || ||||||||||| || || ||||| ||||||||||| || ||||| ||||||||||||||||| || ||  ||| |  |  | |     |||  ||| |  |||  ||  | |  | || ||  ||   || | |  ||      || | |   |   | || | | |||   ||                                          
AGATACGCATAGCGAGGATATTCAACACATATGGTCCTCGTATGAACATTGATGATGGTCGCGTTGTGAGCAACTTCATTGCTCAGGCTCTCAGgtga--aactaatctccatcaagttcttgaatttatcttttttttttttttttttcttgaaaaaatagccgagtaattttgag---tcgaatcctagactaattctaaagcctttttgtttgataaaattgttttgggtttgcag

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgtt--acttctgtatatctattttgatattctgatggttttgattgccagaaggatc
|||| |||||||| |||||||| ||||||||||| || || ||||| || ||||||||||||||||| ||||||||||||||||||||||| ||||||  | |     | | |||    || ||  |  | | | | |||||  |  ||||  || || | ||   |||      ||| |                
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaa--agtcattagctctctcaacttcattgaaacca-agttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag--------------

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 9
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctat-tttgatattctgatggttttgattgccagaaggatc
||||||||||||| ||||| || ||||||||||| || |||||||||||||||||||| |||||||| ||||| ||||| |||||||||||||||||  | |||   |  |   | | | |    |||  |   | | |  || ||   | ||   ||  ||  | |  |        |||   |||      | 
AAATACGCATTGCTAGAATTTTCAACACATATGGGCCCCGCATGAATATTGATGATGGACGTGTTGTCAGCAATTTCATAGCTCAAGCACTTCGgtatgtccttatgtagtccttagctgttgatcatatttgtaagctactattttcatttaatcatgctttgtttaatttccaagatgacatccactgaact-

upper sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 9
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgttacttctgtatatctattttgatattctgatggttttgattgccagaaggatc
|||| ||  | ||| |||| |||||||| ||||| || ||||||||||| || |||||||| || || ||||| || |||||||||||| |  |||| |         | | ||    || |||   | || |||  |  | |  ||   | || |    |||| | | | || | | |               
AAATCCGTGTAGCACGAATTTTTAACACCTATGGGCCTCGCATGAATATCGACGATGGGCGAGTAGTCAGCAATTTTATTGCTCAAGCATTAAGgtactggtcctcaaggtctcaaaattcaatatttcct-taacttaatgaactcaacacatttgacatgatgtacgggtg-tgtag---------------

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|151404362|gb|EV274172.1|EV274172
EST:     AATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCG                         GGGGGAACCATTGACAGTCCAATGTCCAGGAACACAAACTCGA-GTTTCTG
genomic: AATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattactt ... ttcattatagGGGGGAACCATTGACAGTCCAATGTCCAGGAACACAAACTCGAAGTTTCTG
EST: gi|19052776|gb|BM731443.1|BM731443
EST:     AATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG                         GGGGGAACCATTGACAGTCCAATGTCCGGGAACACAAACTCGAAGTTTCTG
genomic: AATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattactt ... ttcattatagGGGGGAACCATTGACAGTCCAATGTCCAGGAACACAAACTCGAAGTTTCTG