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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaagtttgctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT

Basic information

species Glycine max
transcript GLYMA02G01750.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g23740.2 (Oryza sativa), 3'ss of exon 7
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaagttt--gctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
 |    |||  | |    ||  |  |  | |  |  |  |     |  | | | |   ||||||  |  |   ||||||   || |  | ||   | |  || ||||  ||   ||| | |||||| |||||||||||||||||||| ||||||||||||||||| ||||  || || || || ||||||||||||||    
atgttatgggcatgcttccagcactttaaactcat-gtcttgttctatattttgatttcatgatgcactacataagttttgacttgctttatgacttt-tagATATGGAGTTTCTGGCTATCCTACATTGAAGTTCTTCCCAAAGGGAAACAAAGCTGGTGAAGATTACGATGGCGGCAGGGAGTTGGATGACTTTGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g06430.1 (Oryza sativa), 3'ss of exon 7
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaa-gatggaatattacaacatgataaataattgaagtttgctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
 ||        |   | | |     |          |  |    | |    |||       |     ||||  ||| |||     |   ||     | ||||||||  ||   ||| || || || ||||| |||||||||||||| ||||||||||||||||| || |  || ||  | || ||||||||||| ||    
-tagatctaacatacacatacctgtttttataggatgtgtggttggtcatgtatgtttttcttccccataagagaatttttaatcatgcatgccacttcagGTATGGAGTTTCTGGTTTCCCCACATTGAAATTCTTCCCAAAGGGAAACAAAGCTGGTGAAGATTATGATGGCGGTCGCGAGTTGGATGACTTCGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G128171_T04 (Zea mays), 3'ss of exon 6
---------------------------------------------------------------------------------------------ttacggtggttaagaaa-acaaaaaatccagcgaagaggataaagatggaatattac-aacatgataaataattgaagtttgctgga---ataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
                                                                                             |  |  ||  ||  |   || |  | |     | |    ||||      | |||| |  || || |  |||   | | | | ||| |   || | | |    ||||||||  || ||||||||||||||||||||||| ||||||||||| ||||||||||||||||| || |  || |  || ||||||| |||||||||    
gtatgttctgtgtcttacattcacatatgctttatctgcatctgtttccctatttgtgttacctagcagctagcactggagcatgatcttgtttccctttgaatactagtcactagtatttgtttgcaacaaataacaccttattatttctgacttgttctata--cgcaatatactgtacttatcacactacatcagGTATGGAGTTAGTGGATTTCCTACCTTGAAGTTTTTCCCAAAGGGAAACAAAGCTGGTGAAGATTATGATGGCGATAGGGACTTGGTTGACTTTGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: AC217311.3_FGT007 (Zea mays), 3'ss of exon 1
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaagtttgctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
                                            ||| | | || ||   | | |        |  |||  |   |  |||  | ||||| |||| |||   ||| || ||||| |||||||||||||| ||||| |||||||| |||||||| || |  |||||  | |||||||||||||||||    
------------------------------------------gtatgcattcttccatgttcacagc------atctttaataataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 7
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaagtttgctggaataatat--ttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
| || |    | ||  |  | | || | |    |    ||||  |     | ||      |  |  ||  |   ||  | ||  ||||||||   | ||||| |||| |||   ||| || ||||| |||||||||||||| ||||| |||||||| |||||||| || |  |||||  | |||||||||||||||||    
tgacagactgttagggataacacaacctatgacaatttataataactacgt-ttgtcctttcttccatgttcacagcat-ctttaataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G008647_T02 (Zea mays), 3'ss of exon 4
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaag----tttgctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
   |    |       || || | | | |    |    ||||  |     | ||      |  |  ||  |   ||    |||  |   |  |||  | ||||| |||| |||   | | || ||||| |||||||||||||| ||||| |||||||| |||||||| || |  |||||  | |||||||||||||||||    
---caaaagcatctttaataatatacctatgacaatttataataactatgt-ttgtcctttcttccatgttcacagcatctttaataataatatacctctgcagATATGGTGTTTCTAGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G110742_T02 (Zea mays), 3'ss of exon 7
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaagtttgctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
                                            ||| | | || ||   | | ||       |  |||  |   |  |||  | ||||| |||| |||   ||| || ||||| |||||||||||||| ||||| |||||||| |||||||| || |  |||||  | |||||||||||||||||    
------------------------------------------gtatgcattcttccatgttcacaac------atctttaataataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G404011_T01 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------------------ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaa-tattacaacatgataaata---at-----tgaagtttgctggaataatat--ttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
                                                                                   || || | ||  ||  | ||||| | |  |    |  | | |  ||    | |       ||| | |||   ||       |  | |     ||||||||   | ||||| |||| |||   ||| || ||||| |||||||||||||| ||||| |||||||  |||||||| || |  |||||  | |||||||||||||||||    
gtatgcattctgacttgtctatttcagtggttgttatgcacattagctttcagcctttagtttaacaccattggattttcttatatggcgattgtgatga-aaaaatttcctcaggaatcacagaagtgattctctcgtcgtttgacagatatggatgttcacaacatctttaataataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGTCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G170845_T01 (Zea mays), 3'ss of exon 3
----------------------------------------------------------------------------------ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaa-tattacaacatgataaataattgaagtttgctg---------gaataatat--ttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
                                                                                   ||    | ||  ||  | ||||| | |  |    |  | | |  ||    | |       ||| | ||| | || |||  | |          ||||||||   | ||||| |||| |||   ||| || ||||| ||||||||||  || ||||| |||||||| |||||||| || |  |||||  | |||||||||||||||||    
gtatgcattctgacttgtctatttcagtggttgttatgcacattagctttcagcctttagtttaacaccactggattttcttatattacgattgtgatga-aaaaatttcctcatgaatcacagaagtgattctctcgtcgtttgacagata-tggatgttcacagcatctttaataataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTATCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG

upper sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
lower sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 7
ttacggtggttaagaaaacaaaaaat-ccagcgaagaggataaagatggaatat-tacaacatgataaataattgaagtttgctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
 || | |||  | | |    |  ||| ||         | | ||  |    ||| |   | |  |  || |  | |||        | ||   | ||| ||| ||||  ||||||||||| || || ||||| ||||||||||||| ||||||||||||| | || || |  ||||| || || || |||||||||||    
gtaagttggacaggcattttattaataccgattttactgtttaaagtcatttatgtttcataaaaccaaaacataaagac-----aagtaccttatattcagATATGGAGTGAGTGGATTCCCAACATTGAAATTCTTCCCAAAGGACAACAAAGCTGGTCACGATTATGACGGTGGCAGGGATTTAGATGACTTTGTAAGC

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|208334619|gb|GE130464.1|GE130464
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|193333978|gb|FK301366.1|FK301366
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|254328074|gb|GR835039.1|GR835039
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|192331369|gb|FK021037.1|FK021037
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|57575003|gb|CX547978.1|CX547978
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|58016979|gb|CX703721.1|CX703721
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|208245788|gb|GE050596.1|GE050596
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTT
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTT
EST: gi|254345056|gb|GR855713.1|GR855713
EST:     AGTACTTGCAAATCTGGATGCTGATAAATATAAGGGATCTGGCTG-AAA                         GTATGATGTGAGTGGATTTCCTACCCTTGAAGTTCTTCCCAAAGGGCAACA
genomic: AGTAATTGCAAATCTGGATGCTGATAAATATAA-GGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTA-CCTTGAAGTTCTTCCCAAAGGGCAACA
EST: gi|208340776|gb|GE133712.1|GE133712
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|208285002|gb|GE086950.1|GE086950
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACA
EST: gi|163921267|gb|EH038909.1|EH038909
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|207684797|gb|GD664728.1|GD664728
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGAT
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGAT
EST: gi|193330432|gb|FK295308.1|FK295308
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|192333635|gb|FK026880.1|FK026880
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
EST: gi|193720823|gb|FK658987.1|FK658987
EST:     GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAA                         GTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA
genomic: GTAGTAATTGCAAATCTGGATGCTGATAAATATAAGGATCTGGCTGAAAAgtgagtttta ... atttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaatattacaacatgataaataattgaagtttgctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT
     tattacaacatgataa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaagtttgctggaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA