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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATAGTGTCAATGCATACAGAGTGAGCTCTGATCCCCATGATATCATGACGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaactcttacacactcttttgcgattaatttttctgcaacttcctttgtcaatttctgaaaacccaaaaccatcctatttaaaatttataatt...

Basic information

species Glycine max
transcript GLYMA19G41120.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G41120.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os05g24550.4 (Oryza sativa), 5'ss of exon 9
CTATAGTGTCAATGCATACAGAGTGAGCTCTGATCCCCATGATATCATGACGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaactcttacacactcttttgcgattaatttttctgcaacttcct--ttgtcaatttctgaaaacccaaaaccatcctat-ttaaaatttataatt-
 |  |||||||||||||||||||| |  |||||||| ||||| || ||| | || || ||| | ||||| || || |||||||| ||||| ||||||||||||      ||| |     | | |||| | ||   | ||||  ||| ||  |  ||||   ||     ||| | |||   |   ||   |  | ||  |  || 
TTTCAGTGTCAATGCATACAGAGTAAATTCTGATCCACATGACATAATGGCAGAGGTCTACCAAAATGGCCCTGTAGAAGTTGCTTTCACCGTTTATGAGgtaccattgactttc---tattttttttccat-gctctttcaccaaattgttgattgttggttagcagaaatcaaaatggactgtaggctgcagttgctgcttt

upper sequence: GLYMA19G41120.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G02305.1 (Arabidopsis thaliana), 5'ss of exon 8
CTATAGTGTCAATGCATACAGAGTGAGCTCTGATCCCCATGATATCATGACGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaactcttacacactcttttgcgattaatttttctgcaacttcctttgtcaatttctgaaaacccaaaaccatcctatttaaaatttataatt
 ||| |||| | ||| ||||  || || ||| | ||  |||| || ||| | ||||||||||| ||||| || ||||| ||||| ||||||||||| |||||||||   |||     |   |||   | ||| ||      |   | |   ||    || | |  |    |    | | | || ||     | || |   
TTATGGTGTTAGTGCGTACAAGGTCAGATCTCACCCTGATGACATTATGGCAGAAGTTTACAAAAATGGACCTGTTGAGGTTGCCTTCACTGTTTACGAGgtaaat---act-----aggttctagagtgatcaaag---atatgattatattatggaactccacatgttcatgtatctttctgttc---ttctacag--

upper sequence: GLYMA19G41120.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv07s0005g02820.t01 (Vitis vinifera), 5'ss of exon 7
CTATAGTGTCAATGCATACAGAGTGAGCTCTGATCCCCATGATATCATGACGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa-ctcttacac-actcttttgcgattaatttttctgcaacttcctttgtcaatttctgaaaacccaaaaccatcctatttaaaatttataatt
 ||| ||   | |||||| ||| | || ||||||||| |  | || ||| | ||||| ||||||||||| || ||||| ||||| |||||||||||||||||||| |||| | | |   |  |  | |||  || |||||   |||| ||         |  ||||||      |  |   |   | |  ||    ||  | 
TTATGGTCAAAGTGCATATAGAATCAGTTCTGATCCCTACCAAATTATGGCAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaagcacctgttctgcgttattgttatgaatttga-tgcagctaatgagcatatcttctgacgcatgaccaatttggcactctaagaccatggt-

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|120493020|gb|EH221187.1|EH221187
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|9258700|gb|BE346847.1|BE346847
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|21675978|gb|BQ628329.1|BQ628329
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|7925196|gb|AW831222.1|AW831222
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCANGAGTATACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|192322841|gb|FK014772.1|FK014772
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|193720934|gb|FK661198.1|FK661198
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGTAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|254320265|gb|GR831073.1|GR831073
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|18848714|gb|BM567826.1|BM567826
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|192312976|gb|FK003642.1|FK003642
EST:     CGGAAGTTTACAAGGATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|6914718|gb|AW396248.1|AW396248
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCANGAGTTTACAAACACATCACANGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|10252856|gb|BE820622.1|BE820622
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|254329734|gb|GR839287.1|GR839287
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCACGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|151407971|gb|EV277786.1|EV277786
EST:     GGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTTATGAG                         -ATTTTGCTCACTACAAATCAG
genomic: GGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTT-ATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAG
EST: gi|192312975|gb|FK003641.1|FK003641
EST:     CGGAAGTTTACAAGGATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|16282781|gb|BI945202.1|BI945202
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|23064266|gb|BU579039.1|BU579039
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCATGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|254320264|gb|GR831072.1|GR831072
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|31476328|gb|CD418356.1|CD418356
EST:     TTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: TTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|209724788|gb|BW672571.1|BW672571
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|19346981|gb|BM891861.1|BM891861
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
EST: gi|14259461|gb|BG882369.1|BG882369
EST:     CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAG                         GATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA
genomic: CGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa ... ctcttcacagGATTTTGCTCACTACAAATCAGGAGTTTACAAACACATCACAGGTTATGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTATAGTGTCAATGCATACAGAGTGAGCTCTGATCCCCATGATATCATGACGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaactcttacacactcttttgcgattaatttttctgcaacttcctttgtcaatttctgaaaacccaaaaccatcctatttaaaatttataatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG