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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAACCCTCCGATTCCCCCTGGGCCGGCCGCATCACCTTCCACCGCCTCAACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataataccttcttttctctttcttttcctctttgttttattttctttacatcgtatcgtttctttctccgtttcag

Basic information

species Glycine max
transcript GLYMA12G08930.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g73790.1 (Oryza sativa), 5'ss of exon 1
CGAACCCTCCGATTCCCCCTGGGCCGGCCGCATCACCTTCCACCGCCTCAACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataataccttcttttctctttcttttcctctttgttttattttctttac-atcgtatcgtttctttctccgtttcag---
||| ||| ||  | ||| |      ||||||||| ||||||||||||||||||||||  |||||||  | ||||| ||||||||||||||||| ||||| ||        ||   |  ||| | || |   | |   | | ||||  |||   ||   |    ||  |||    | |  |   
CGACCCCGCCCCTCCCCACCTCCATGGCCGCATCTCCTTCCACCGCCTCAACATCAAGAACGACTCCAGGCTCGAGGGCCTCATCAAGATGGCCGATCTGgtctctccctctctctccctcctgctctcaatttcaatctcatttcatttctgataacacgccttgattccggatctgcgtag

upper sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G167872_T01 (Zea mays), 5'ss of exon 1
CGAACCCTCCGATTCCCCCTGGGCCGGCCGCATCACCTTCCACCGCCTCAACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac-cttcttttctctttcttttcct---ctttgttttattttctttacatcgtatcgtttctttctccgtttcag-----------------------------------------------------------------------------
||| ||| |     | | |   || || |||||| ||||||||||||||||||||||  | |||||  | ||||| ||||||||||||||||| ||||| || | |     || |     | ||||    ||     ||  | | ||    | ||| | ||||  || |  | | |  ||                                                                                
CGACCCCGCGCCGCCGCACCTCGCGGGGCGCATCTCCTTCCACCGCCTCAACATCAAGAATGACTCCAGGCTCGAGGGCCTCATCAAGATGGCCGATCTGgtgagagcctgctgccaccatatttcgggacccagatttcatctcatcagttatac-tagtataatt-caatatgcacttggtacccaaaaagttctgctcccactcaagaattccttcccttcccatctcctgctgctgcttgggtggtggatctgaag

upper sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 1
CGAACCCTCCGATTCCCCCTGGGCCGGCCGCATCACCTTCCACCGCCTCAACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaa--taataccttcttttctctttcttttcctctttgttttat---tttctttacatcgtatcgtttctttctccgtttcag---------------------------------------------------------------
||| ||| |     | | |   ||||| |||||| | ||||||||||| ||||| ||| |||||||  | || || || |||||||||||||| ||||| || |  || | |||  | |||    | | ||||| |||  ||| |   || |||   |     | |  |   | ||   || |                                                                
CGACCCCGCGCCGCCGCACCTCGCCGGGCGCATCTCATTCCACCGCCTTAACATAAAAAACGACTCCAGGCTAGAGGGGCTCATCAAGATGGCCGATCTGgtcagttagtgcctattcttccacctatcttccttttttctttctcgattgcttactactacttggaatgcatttcgaattgactcacggatttcctcatcctctcctgccatgctgctgctgcttggatctgatctgcgcgccaag

upper sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 1
CGAACCCTCCGATTCCCCCTGGGCCGGCCGCATCACCTTCCACCGCCTCAACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgta-ataataccttcttttctctttcttttcctctttgttttattttctttacatcgtatcgtttctt--tctccgtttcag--------
||| || ||       || ||| |||  |||||    || |||||| |||||||||| ||||| ||  | |||||||| |||||||||||||||||||| ||   | || ||    ||||| ||||||    |   | ||  ||||  |  |  | | |||  ||  |    |    ||  |        
CGAGCCGTCTACGCATCCTTGGTCCGATCGCATTCAGTTTCACCGCATCAACATCAAGCACGATTCGAGGCTCGAAGGACTCATCAAGATGGCAGATCTGgttcgttattccccaatttctatttcttgcattggattttgcatttcttggattttgaatcaatttgtggcgttttctttggtaatgcag

upper sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 1
CGAACCCTCCGATTCCCCCTGGGCCGGCCGCATCACCTTCCACCGCCTCAACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgta-ataataccttcttttctctttcttttcctctttgttttattttctttacatcgtatcgtttctt--tctccgtttcag--------
||| ||  | |     || ||| |||  |||||    || |||||| |||||||||| ||||| ||  | |||||||| |||||||||||||||||||| ||   | || || || ||||| ||||||    |   | ||  ||||  | ||  | |||||  ||  |    |    ||  |        
CGAGCCGGCTGCACATCCTTGGTCCGATCGCATTCAGTTTCACCGCATCAACATCAAGCACGATTCGAGGCTCGAAGGACTCATCAAGATGGCAGATCTGgttcgtgattccctcgtttctatttcttgcattggattttgaatttcttgtattttgtatcaatttgtggcgttttctttggtaatgcag

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|8826577|gb|BE210307.1|BE210307
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|254329640|gb|GR839193.1|GR839193
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|4292436|gb|AI437762.1|AI437762
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|193500414|gb|FK464435.1|FK464435
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|209721840|gb|BW680026.1|BW680026
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|21677201|gb|BQ629552.1|BQ629552
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|6502082|gb|AW203455.1|AW203455
EST:     CATCAAACACGAACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: CATCAAACACGA-CTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|120529417|gb|EH257551.1|EH257551
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|213593026|gb|DB973499.1|DB973499
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|5666614|gb|AI930650.1|AI930650
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|22540365|gb|BU090208.1|BU090208
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|120533375|gb|EH261508.1|EH261508
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|120533338|gb|EH261471.1|EH261471
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|120533391|gb|EH261524.1|EH261524
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGGCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|213610339|gb|DB962953.1|DB962953
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|208190909|gb|GD989597.1|GD989597
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|10233113|gb|BE802058.1|BE802058
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|15204734|gb|BI427502.1|BI427502
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|15337580|gb|BI498236.1|BI498236
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|20812080|gb|BQ296558.1|BQ296558
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|27427518|gb|CA939038.1|CA939038
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|209716222|gb|BW654270.1|BW654270
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|10710707|gb|BF010425.1|BF010425
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATTTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|20448618|gb|BQ252742.1|BQ252742
EST:     GCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: GCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|15287333|gb|BI471224.1|BI471224
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|20498467|gb|BQ273397.1|BQ273397
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|23057405|gb|BU578079.1|BU578079
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|24135586|gb|BU926096.1|BU926096
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|10234847|gb|BE803735.1|BE803735
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
EST: gi|26047224|gb|CA784089.1|CA784089
EST:     ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTC                         ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT
genomic: ACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataatac ... tccgtttcagACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGAACCCTCCGATTCCCCCTGGGCCGGCCGCATCACCTTCCACCGCCTCAACATCAAACACGACTCTCGCCTCGAAGGCCTCATCAAGATGGCAGATCTCgtaataataccttcttttctctttcttttcctctttgttttattttctttacatcgtatcgtttctttctccgtttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT