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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttcctggttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag

Basic information

species Glycine max
transcript GLYMA13G43680.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttcctggttgtttcctatgata--taatgcattaatg-cacctgttgtcttctcttttcag-----------------------
 || || || || || |||||||| ||||| |||||||| |||||||| || ||||| || || || ||||||||||| || |||||||| ||| |||||||    ||  | | ||||||||     || | |   |||  |  ||||||  |  ||  | |||   |   |||  |                        
TCAAATCTTCGAGGGGCATTCTCACTATGTTATGCAAGTCACATTTAACCCGAAAGATACCAATACTTTTGCTAGTGCTTCACTTGATCGCACAGTAAAGgt----ttgcgattttgttccttacatttgcttggcatagtttttgcatttctaacatttcttggtctggatttgaatgtggtgcccttatttaatttcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G124886_T04 (Zea mays), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgta-gaattatgttcttgtt------cctggttgtttcctatgatataatgcattaatgcacctgttgtcttctctttt-cag-----------------------------------
 || ||||||||||| |||||||| ||||| |||||||| |||||||| || ||||| |||||||||||||||||||| || || ||||| |||||||||||  |  |||| | |   ||       |||||||    | ||| |  | |   |     |  | |  | |  || |||   ||                                   
TCAAATATTTGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACAAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgttatctccgctttaaaaattctggttggccacaatgttgcattatttggtaccgacaggcgacagctttttcatagcttgatggtgatatcctattttttgtcaatatcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttcctggttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag---------------------------
 || || ||||| ||||| ||||| |||||||||||||| |||||||| |||||||||||||| || ||||||||||| ||||||||||| ||  |||||||| |   || |  ||  |  || ||   |  ||   ||| |     |  |   ||| ||  ||   |||  |                             
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaatttctcgttttcctctttgctagccttaacgagcaattttctttacttgaaatttctag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttc-------ctggttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag---------------------------
 || ||||| ||||| |||||||| ||||| |||||||| |||||||| || ||||| || ||||||||||||||||| || || ||||| |||||||||||     ||   |||  ||        ||||||| |  | ||| | || |   |     ||   | | | |  |  ||| |                            
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttcctggttgtttcctatgatataatgca-ttaatgcacctgttgt-cttctcttttcag------------
 |||||||| || || || || || ||||| |||||||| ||||||||||| |||||||| ||||| ||||| |||||||| |||||||| || ||||||||      ||| |||            |    |||| | || | |  ||| | | |   || | | | |   | ||             
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcat-tatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 10
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaatta-tgttc----------ttgttcctggttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag-----------------------
 || || || ||||||||||| |||||||| |||||||| || || || ||||||||||| || || |||||||||||||| ||||| || || ||||| |||  |||| | |||          ||   |||  || |||| |     ||    |||||    |    |    ||   ||| | |                       
TCAAATTTTCGAAGGCCATTCCCATTATGTTATGCAAGTCACTTTCAACCCCAAAGACACCAATACTTTTGCTAGTGCATCCCTTGACCGTACCATAAAAgtaagattagtcttcaacttttaagttacaccttcttctttcattcccaatttcccattatgagaagcttaacatttgttttcctgtatctacatcttttcttacctag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgta-gaattatgttcttgttcctggttgttt---ccta--tgatataatgcattaatgcacctgttgtctt----ctcttttcag----------------
 ||||||||||| || ||||| || ||||| ||||||||   ||||||||| ||||| || ||||| ||||| ||||| || |||||||| || ||||||||  | |  | || |  |  |   | | ||    | ||  |   |  | | | |  |  |   ||| ||||       ||||||                 
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttcctggttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag-------------------------------------
 ||||| ||||| ||||| ||||||||||| |||||||| ||||||||||| ||||| || ||||| ||||||||||||||||| ||||| || || ||||||  ||  ||   ||  |  |||    ||  ||   |  | |   |||       || | || ||   | | ||                                     
TCAGATCTTTGAGGGCCACTCTCATTATGTGATGCAAGTGACATTTAATCCAAAAGATACCAACACTTTTGCTAGTGCATCTCTGGATCGCACCATTAAGgtatgatc-tggattttctgttggcaacttgtta-actgcatttttttaccaattttgct-tcatcaagtatgagtgtgctatttatgctctgatgatatctccttttccag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgta------gaattatgttcttgttcctggttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag--------------------
 ||||| |||||||| |||||||| || || |||||||| ||||||||||| |||||||| ||||||||||| ||||| || || ||||| || ||||||||       ||| | | |  |  |  |  |||||   || |||     ||  | ||||  |   |  |  ||  |    ||                    
TCAGATTTTTGAAGGGCATTCTCACTACGTGATGCAAGTGACATTTAATCCAAAAGACACCAACACCTTTGCAAGTGCCTCCCTCGATCGCACTATAAAGgtgtgagtggaaatgtttcttgataacctgttgtgaact-tgaagatgtgtttcaatgtcctaatgttgatccttccatagttgattttattgattgtgtg

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: PP1S79_180V6.2 (Physcomitrella patens), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttcctggttg--tttcctatgatataa--tgcattaatgcacc-------tgttgtcttctcttttcag-----------------------------------------------------------------------------------------------------------
 || || || ||||| || ||||||||||||||||||||||| ||||||||||||||||  ||||||||||| ||||| ||| | ||||| ||  | |||||    |     |    | | | |||   ||| ||    ||| |  ||  || |   |           | |  |||  | | |                                                                                                             
TCAAATTTTCGAAGGGCACTCTCATTATGTCATGCAAGTAACGTTTAATCCCAAAGACAGCAACACCTTTGCAAGTGCTTCTTTGGATCGAACTGTGAAGgtgaggtaccagttggttccgtcgtttatttttctgcagtattagctgtcttgaaatattacaaaatcatagggttccttatgctaatagctttaccccatattcaagcaacgaagttcaactgatgtaagattgtcttccaagacaatagaacaaaacgatggcttaattgtatggactgtctttttaacag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
lower sequence: PP1S243_63V6.1 (Physcomitrella patens), 5'ss of exon 6
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaat--tatgttctt----gttcctg-------gttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag-----------------------------------------------------------------------------------------
|||||| |||||||| ||||||||||||||||||||||| || || |||||||||||||  ||||| ||||| || || ||  | ||||| ||  | |||||   ||  ||||| |||    |||| |         || | | |    | | | |  || ||   |   |      | |   | ||                                                                                          
CCAGATCTTTGAAGGACATTCTCATTATGTCATGCAAGTGACTTTCAATCCCAAAGACAGTAACACTTTTGCAAGCGCTTCCTTGGATCGAACTGTTAAGgtgagatattatgtgcttcgatgttcttctattggcattatgtacgtaaagaaattctatgaaaaaaaaaggaagagttttaatccactcgacttgttgtggaatgcttttttagggtagtgttctaaacgtatatcgccatattgagttgatcagatgagctctgtctttgtatag

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|9987279|gb|BE661387.1|BE661387
EST:     AGTGCATCTCTTGATCGGACAATAAAG                         ATTTGGAATCTTGGCTCTCCTGATCCTAATTTTACTTTGGATGCTCATCAG
genomic: AGTGCATCTCTTGATCGGACAATAAAGgtagaattat ... ctcttttcagATTTGGAATCTTGGCTCTCCTGATCCTAATTTTACTTTGGATGCTCATCAG