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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATATTGTGAGAATTAAACTTCTCCGAAATAAACCAGATCATGCACTTATTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAGgtgtgtttcagatataccttcctgttcttatattatgatactagatttctgtgatatctttactcaagtgagaagttattattgtttgttatatatgtta...

Basic information

species Glycine max
transcript GLYMA20G30820.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G30820.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv18s0072g00310.t01 (Vitis vinifera), 5'ss of exon 13
GAATATTGTGAGAATTAAACTTCTCCGAAATAAACCAGATCATGCACTTATTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAGgtgtgtt-tcagatataccttcctgttcttatattatgatactagatttctgtgatatctttactcaagtgagaagttattattgtttgttatatatgtta
 || ||||| |||||||| || ||||| ||||| ||||||||||||||  | || ||||| ||||| || || || || ||||| ||||| |||||||||||   |  |     |  |||||  | |    |  |  |||  ||| | |   | | || |||  |     || | | |||   ||||      | |  |  
AAACATTGTCAGAATTAAGCTGCTCCGCAATAAGCCAGATCATGCACTAGTCCAAATGGGTGATGGCTTCCAGGCCGAGTTGGCAGTACATTTTCTGAAGgtagatagtttaccaccccttcaagatacatttctgagattatagttgtgattaagatgtttgatttgtggatatgatatgtctgttgaaagaacagatg-

upper sequence: GLYMA20G30820.1 (Glycine max), 5'ss of exon 14
lower sequence: PP1S36_37V6.1 (Physcomitrella patens), 5'ss of exon 12
GAATATTGTGAGAATTAAACTTCTCCGAAATAAACCAGATCATGCACTTATTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAGgtgtg-------tttcagatat--accttcctgttctta--tattat----------gatactagattt----ctgtgatatctttactcaagtgagaagttattattgtttgttatatatgtta-------------------------------------------------------
||| |||||| | || ||  |||| |  ||||| ||||| || || || ||||||||||||||||| |||||||||||  ||||| |  ||| ||| ||||| ||       |||| |   |  |  | | |||| | |  | || |          ||  ||   ||     | | ||      ||| || ||| |  ||  || |  |||||| |  | | |                                                        
GAACATTGTGCGCATCAAGATTCTTCATAATAAGCCAGACCACGCTCTGATTCAGATGGGAGATGGATTTCAAGCAGAGCTGGCTTTCAACTATCTAAAGgtatgctagtattttctggagttgaattacttgttttgaagtgttgtttagtgaacagaggctgagttgagcacggcgacggagatac-catgtgtggggtagtt-tcttttgttgtggacgatgtcgtgtggaagatgcggttggtgagttggaaaggtggagaatttgggatgtgcag
















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|193584052|gb|FK540242.1|FK540242
EST:     TTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAG                         GGAGCCATGTTGTTTGAGAAA
genomic: TTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAGgtgtgtttca ... tgaggtgtagGGAGCCATGTTGTTTGAGAAA
EST: gi|9264616|gb|BE352763.1|BE352763
EST:     TTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAG                         GGAGCCATGTTGTTTGAGAAACGATTAGAGGTCAACTTCTCCAAGCATCCG
genomic: TTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAGgtgtgtttca ... tgaggtgtagGGAGCCATGTTGTTTGAGAAACGATTAGAGGTCAACTTCTCCAAGCATCCG
EST: gi|24206133|gb|BU965386.1|BU965386
EST:     TTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAG                         GGAGCCATGTTGTTTGAGAAACGATTAGAGGTCAACTTCTCCAAGCATCCG
genomic: TTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAGgtgtgtttca ... tgaggtgtagGGAGCCATGTTGTTTGAGAAACGATTAGAGGTCAACTTCTCCAAGCATCCG
EST: gi|193653705|gb|FK595587.1|FK595587
EST:     TTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAG                         GGAGCCATGTTGTTTGAGAAA
genomic: TTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAGgtgtgtttca ... tgaggtgtagGGAGCCATGTTGTTTGAGAAA
EST: gi|193605279|gb|FK557237.1|FK557237
EST:     AGAATTGGCTGTACACTTTCTGAAG                         GGAGCCATGTTGTTTGAGAAACGATTAGAGGTCAACTTCTCCAAGCATCCG
genomic: AGAATTGGCTGTACACTTTCTGAAGgtgtgtttca ... tgaggtgtagGGAGCCATGTTGTTTGAGAAACGATTAGAGGTCAACTTCTCCAAGCATCCG
EST: gi|17023900|gb|BM094934.1|BM094934
EST:     GTACACTTTCTGAAG                         GGAGCCATGTTGTTTGAGAAACGATTAGAGGTCAACTTCTCCAAGCATCCG
genomic: GTACACTTTCTGAAGgtgtgtttca ... tgaggtgtagGGAGCCATGTTGTTTGAGAAACGATTAGAGGTCAACTTCTCCAAGCATCCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATATTGTGAGAATTAAACTTCTCCGAAATAAACCAGATCATGCACTTATTCAGATGGGAGATGGTTTTCAAGCAGAATTGGCTGTACACTTTCTGAAGgtgtgtttcagatataccttcctgttcttatattatgatactagatttctgtgatatctttactcaagtgagaagttattattgtttgttatatatgtta

- - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttcct