Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCAACAGGTTCGCACATTGATGCTATACCTTACTCGGGAAAATATGATGGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatttttcttactattgctgatgtaggacttaattgaatcttcagaatacaaattcttttatttgctgtctatcttctgataatttatgagcaa...

Basic information

species Glycine max
transcript GLYMA10G32850.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32850.2 (Glycine max), 5'ss of exon 3
lower sequence: AT5G43600.1 (Arabidopsis thaliana), 5'ss of exon 4
TTGCAACAGGTTCGCACATTGATGCTATACCTTACTCGGGAAAATATGATGGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatttttcttactattgctgatgtaggacttaattgaatcttcagaatacaaattcttttatttgctgtctatcttctgataatttatgagcaa
| || || ||||| ||||| |||||||| || || || || ||||||||||| ||||| |||||||||||||| |||||||| ||||  ||  ||||||||| |      | | |   || ||   |   | | || |  |     |||   ||     ||  |  || |    | | | |||| |              
TAGCCACTGGTTCTCACATCGATGCTATTCCATATTCCGGGAAATATGATGGTGTTGTCGGTGTTTTAGGTGCGATTGAAGCTATCAATGTTTTGAAAAGgtatgaaggatctttggataatggaaagtaaagtctaagattgtgtttcctgatggtttttggtggatatttcttttgttttcttaag------------

upper sequence: GLYMA10G32850.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0020g04900.t01 (Vitis vinifera), 5'ss of exon 4
TTGCAACAGGTTCGCACATTGATGCTATACCTTACTCGGGAAAATATGATGGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatttttcttactattgctgatgtaggacttaattgaatcttcagaatacaaattcttttatttgctgtctatcttctgataattta-tgagcaa--
||||||||||||| |||||||||||||| || ||||| || ||||||||||| || || |||||||| ||||| || |||||||| |  || || | ||||| |   | ||   ||||| |||   |||| |  ||    | |      |   | |||||  |   | | | |    |  ||      ||  | |  ||||  
TTGCAACAGGTTCTCACATTGATGCTATTCCATACTCTGGGAAATATGATGGGGTCGTCGGTGTTTTGGGTGCAATAGAAGCCATTAATGTTCTAAGAAGgtgtgcaacttgctttactgttgtaaatgtggatctc---taagatgatatgttgcaaatgatggaaatagattatcacattgaagctatgaagtaggcaagt
















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|120532605|gb|EH260738.1|EH260738
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|16347483|gb|BI973078.1|BI973078
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|298176989|gb|HO023350.1|HO023350
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGA
EST: gi|208113533|gb|GD911606.1|GD911606
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|14990231|gb|BI315904.1|BI315904
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|213595183|gb|DB960190.1|DB960190
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|209723482|gb|BW669483.1|BW669483
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|120532833|gb|EH260966.1|EH260966
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|298179399|gb|HO027870.1|HO027870
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATCCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|151408662|gb|EV278470.1|EV278470
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|209700349|gb|BW664386.1|BW664386
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|298171715|gb|HO021307.1|HO021307
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|120532878|gb|EH261011.1|EH261011
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|15338254|gb|BI498910.1|BI498910
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|213616932|gb|DB959244.1|DB959244
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
EST: gi|192306703|gb|FG998857.1|FG998857
EST:     GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAG                         GTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA
genomic: GGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatt ... accttcacagGTCTGGTTTTAAACCTAGAAGACCATTGGAAGTCATATCATTCACATCAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCAACAGGTTCGCACATTGATGCTATACCTTACTCGGGAAAATATGATGGAGTTGTTGGTGTTTTAGGTGCTATTGAAGCCATCAGAGTCCTGAAAAGgtttttgatttttcttactattgctgatgtaggacttaattgaatcttcagaatacaaattcttttatttgctgtctatcttctgataatttatgagcaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC