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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctttcattcagtcaaaacttagatttgatcctatccatgtattatcttgtgtcgatcattcagcttagcttccaacttgtgacattgcttgg...

Basic information

species Glycine max
transcript GLYMA14G05430.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 10
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagt-acctttcattcagtcaaaacttagatttgatcctatccatgtattatcttgtgtcgatcattcagcttagcttccaacttgtgacattgcttgg
| | ||||| |||||||| ||||| |||||  | ||||| || ||||||||||| || ||||  || |||||||||||||||||  ||   ||  |||||||| ||  | |    |  ||   | | | |    | |   | |     | |      |    | | |||  | ||| ||  ||| |  |   ||   |  |
AGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACGTTGCAgtatgttgcttcatgtctagcttatattgaatacttaatttgtttgcttttccaaccgaaatg-ttattt-gtttacctatcaaatactacaatatttcag

upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G104920_T02 (Zea mays), 5'ss of exon 9
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtaccttt-cattcagtcaaaacttagatttgatcctatccatgtattatcttgtgtcgatcattcagcttagcttccaacttgtgacattgcttgg-
| | ||||| |||||||| ||||| |||||  | ||||| || ||||||||||| || ||||  || |||||||||||||||||  ||   ||  |||||||| ||  |||    |  ||   | | | |    | |   | |     | |      |    | | |||  | ||| ||  ||| |  |   ||   |  | 
AGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACGTTGCAgtatgttgcttcatgtctagcttatattgaatacttaatttgtttgcttttccaaccgaaatg-ttattt-gtttacctatcaaatactacaatatttcagg

upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: AT2G32950.1 (Arabidopsis thaliana), 5'ss of exon 10
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctttca--ttcag--tcaaaacttagatttgatc----ctatccatgtattatcttgtgtcgatcattcagcttagcttccaacttgtgacattgcttgg------------------------------------
| ||||||| || |  |||||||| |||||  | ||||| || ||||||||||||||||| |||||||| || |||||||| ||  |||| || ||||| |||  ||| |       |||   |   | || | ||||  ||    | |  |||| || | | ||   | ||||  |  ||     |  ||  | | |  | | | |                                     
AGTTTGGTGCACGAGGCAGGAAGCAAGTGTGATTAATATTGATATGAAAGCAAACATATGTTGTGTCAAGTACAATCCTGGCTCAAGCAACTACATTGCGgtatatacttccacgcctcaactttgcatctcacatttattcgctaccactcatg-atcagcatgacactatcacacgtctctagatataatctttaat-tagatagagagacttagacgtttaagcctgttgacttatcacag

upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv12s0059g01420.t01 (Vitis vinifera), 5'ss of exon 10
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctttcattcagtcaaaacttagatttgatcctatccatgtat-tatcttgtgtcgatcattcagcttagcttccaactt-gtga---cattgcttgg
| ||||||| ||||| ||||| ||||| ||||| || || |||||||||||||| ||||| |||||||| ||||||||||||||| ||| ||||||||| ||| |   ||   ||||  |  | | |    | | |   || |  |  |  | | |||  |  ||   |      | ||  |||||| ||||   ||  | ||  
AGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATATTGCGgtatg---ctcctattccatacatattcttttattaatgtagctgtaaacctgttttgcatatattcctgtctaaacctgacaactttgtgaggccacagttt--

upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S135_17V6.1 (Physcomitrella patens), 5'ss of exon 10
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctttcattcagtcaaaacttagatttgatcctatccat--gtattatcttgtgtcgatcattcagcttagcttccaacttgtgacat---tgcttgg--------------------------------------------
 || ||||| || |  || ||  | || ||  |||||||||||||||| ||||| || |||||||| || ||||||||||||||  |||  ||| ||||||||||  |||  |||||   ||||| | |    ||    |||||||  |||   || | |     |  |  |    | |||  |  ||   ||||   | | | |                                            
GATATGGTGCACGAGGCAAGAGTCAAGCGTGATAAATATAGACATGAAGGCAAATATTTGCTGTGTGAAGTATAATCCTGGATCAAGCAGCTATGTTGCAgtaagatcct--cattcctccaaaa-tgactcatgtcagtatccatttgtaccctcatttaatagtggtctactggatctttgattttccaacatgtataccttgggtttgtgctattaccttagattgtggatttcatctggttgcag

upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S25_325V6.1 (Physcomitrella patens), 5'ss of exon 10
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctttca-ttcagtcaaaacttagatt---tgatcctatccatgtattatcttgtgtcgatcattca-gcttagcttccaa--cttgtgacat--tgcttgg---------------------------------------------------------------------------------------
  ||||||| || |||||||| ||||||||| | | |||||||||||| || ||||| ||||| || || || |||||||| ||  ||||  ||||||| || |||     ||  |||| |  ||   | |||    |   |  | |    |||| |    |   |   |||    ||| | || ||    || |  |||  || |||                                                                                        
GCTTTGGTGCACTAATCAGGAGGCTAGTGTTTTTAGTATAGACATGAAGGCCAACATCTGCTGCGTTAAGTACAATCCTGGTTCAAGCAACCATATTGCTgtgagttttggtctcttcaatataagtgtcgatcaccttggcaaacctcgatatttttacattctgtatatttgcactttgttttcatgtttttttgcatgatgtttgtgtgatgggacctactatttcattttgatataacttggtgagatcacggcctcttacttcactgtggcctttacggtactgtttgcag

upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S86_153V6.1 (Physcomitrella patens), 5'ss of exon 10
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctt--tcattcag---------tcaaaacttagatttgatcctatccatgtattatcttgtgtcgatcattcagcttagcttccaacttgtgacat-tgcttgg-----------------
 || |||||||| |  || ||  | || ||  |||||||||| ||||||||||| || |||||||| || || || || |||||  |||| ||| ||||||||||||| |   || | ||           ||  |  | ||| ||||  |  ||   |   |   |||  | || ||    || | ||    |||    ||   |  ||||                 
GATATGGTGTACGAGGCAAGAGTCAAGCGTGATAAATATAGATATGAAAGCAAATATTTGCTGTGTGAAGTACAACCCAGGATCAAGCAACTATGTTGCAgtaagtacttcgatcctccaaaatgatttaccatcatcttgatgtgataatgacctgttgaaactctgttccaat-atctgtctaaactgtatactatcaactcatttttggattgtaccttgctgcag

upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: EFJ20512 (Selaginella moellendorffii), 5'ss of exon 10
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctttcattcagtcaaaacttagatttgatcctatccatgtattatcttgtgtcgatcattcagcttagcttccaacttgtgacattgcttgg
  | ||||| || |  |||||  | ||||| || || || |||||||| |||||||| |||||||||||||| ||||| |||||| |||||| | | || |||  |  ||||||   || ||||| ||    |||    |  |  ||  ||   ||   |     |                                  
GCTGTGGTGCACCAGGCAGGAGACAAGTGTCCTGAACATTGACATGAAGGCAAACATTTGCTGTGTCAAATACAATCCCGGATCTAGCAATTTTGTCGCGgta--tttctttcaactag-caaaaattcttgttgtgtttgacagtgccttggtttactttttctag---------------------------------

upper sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 10
lower sequence: EFJ28584 (Selaginella moellendorffii), 5'ss of exon 10
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctttcattcagtcaaaact-----tagatttgatcctatccatgtattatcttgtgtcgatcattcagcttagcttccaacttgtgacattgcttgg
  | ||||| || |  |||||  | ||||| || || || |||||||| |||||||| |||||||||||||| ||||| |||||| |||||| | | || |||  |  ||||||   ||  || | |     |   |||||   |  |  ||| |||  || | | |                                      
GCTGTGGTGCACCAGGCAGGAGACAAGTGTCCTGAACATTGACATGAAGGCAAACATTTGCTGTGTCAAATACAATCCCGGATCTAGCAATTTTGTCGCGgta--tttctttcaactagcaaagattcttgttgtgtttgacagtgcctttgt-ttactttttctag--------------------------------------

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|7042199|gb|AW472102.1|AW472102
EST:     CAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCA                         ATTGGATCAGCAGACCATCACATCCATTATTATGATTTGAGAAATATTAGC
genomic: CAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacct ... acttttgcagGTTGGATCAGCAGACCATCACATCCATTATTATGATTTGAGAAATATTAGC
EST: gi|151403867|gb|EV273677.1|EV273677
EST:     CAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCA                         GTTGGATCAGCAGACCATCACATCCATTATTATGATTTGAGAAATATTAGC
genomic: CAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacct ... acttttgcagGTTGGATCAGCAGACCATCACATCCATTATTATGATTTGAGAAATATTAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAgtaagtacctttcattcagtcaaaacttagatttgatcctatccatgtattatcttgtgtcgatcattcagcttagcttccaacttgtgacattgcttgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG