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

ATTGTCCAACATATCTTACTTGACATGCCTAGTCTTGCTTTCTTTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaagttcattctgtggtatatgtacatttactatttttctttttaatgagtatgggatattgctattttggtggcctgattatgagtttatgactttgatgctacatgttttgcag

Basic information

species Glycine max
transcript GLYMA08G09640.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G09640.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g02850.2 (Oryza sativa), 5'ss of exon 4
ATTGTCCAACATATCTTACTTGACATGCCTAGTCTTGCTTTCTTTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaagttcattctgtggtatatgtacatttactatttttctttttaatgagtatgggat-attgctattttggtggcctgattatgagtttatgactttgatgctacatgttttgcag
 |  | |||||| |  |  ||||  | ||  | ||||| ||||| ||||| ||||| ||||| || || ||||||||||||||||| || ||||  ||||     || | |||||     |||  | ||| ||   |   ||  | ||   | |||| | |  || |||| |  || | ||                              
GTATTTCAACATGTGCTCATTGATTTTCCGGGGCTTGCATTCTTCACAACCTATGCTCTGTTAGTGCTCTTCTGGGCTGAGATTTACTATCAGgttagttttacttg-gatatat-----tttggt-tttgtcccatgggtgtttttgttctcattggt-tcatgatggcat--ttgttag------------------------------

upper sequence: GLYMA08G09640.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTGTCCAACATATCTTACTTGACATGCCTAGTCTTGCTTTCTTTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaag--ttcattctgtggtatatgtacatttactatttttctttttaatgagtatgggatat-tgctattttggtggcctgattatgagtttatgactttgatgctacatgttttgcag
||| | ||||||||||||||||| || || |||||||||||||| || || ||||||||  |||| || || ||||| |||||||| ||||||| ||   || |||||||  ||||| | || ||  || ||||   |  | ||    ||  || |   |||| ||||  |                                          
ATTCTGCAACATATCTTACTTGATATTCCAAGTCTTGCTTTCTTCACTACATATGCGCTTCTGGTTCTCTTTTGGGCAGAGATTTACTACCAGgtaaaccttgattctgta-tatattttcaatt--tagtttttcctgcattgttgttgatatttactctatcttggcag------------------------------------------

upper sequence: GLYMA08G09640.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTGTCCAACATATCTTACTTGACATGCCTAGTCTTGCTTTCTTTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaagttcattctgtggtatatgtacatttactatttttctttttaatgagtatgggatattgctattttggt-ggcctgattatgagtttatgactttgatgctacatgttttgcag
||| | ||||||||||| ||||| || || |||||||||||||| || || ||||| ||  |||| || ||||||||||| |||||||| |||| |  |||      |  |   | |  ||    |  |||| || | ||||  | |  | | ||| ||||||  |   |    || ||| |  |                          
ATTCTGCAACATATCTTGCTTGATATTCCAAGTCTTGCTTTCTTCACCACCTATGCTCTTCTGGTTCTTTTCTGGGCTGAAATTTATTATCAGgtagtttc------taatgagtatctatgggtttctttttttgtcaatgcttctttggttttgatattttacttaacactcttttgattggacag-----------------------

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|105633938|gb|DW247301.1|DW247301
EST:     ACTGTTCTGGGCTGAGATTTATTACCAG                         GCACGTGCCGTATCTACTGATGGTCTCAGACCAAGTTTCTATACGATTAAT
genomic: ACTGTTCTGGGCTGAGATTTATTACCAGgcaagttcat ... tgttttgcagGCACGTGCCGTATCTACTGATGGTCTCAGACCAAGTTTCTATACGATTAAT
EST: gi|58024096|gb|CX710837.1|CX710837
EST:     TTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAG                         GCACGTGCCGTATCTACTGATGTTCTCAGACCAAGTTTCTATACGATTAAT
genomic: TTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaagttcat ... tgttttgcagGCACGTGCCGTATCTACTGATGGTCTCAGACCAAGTTTCTATACGATTAAT
EST: gi|213611111|gb|DB972699.1|DB972699
EST:     TTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAG                         GCACGTGCCGTATCTACTGATGGTCTCAGACCAAGTTTCTATACG
genomic: TTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaagttcat ... tgttttgcagGCACGTGCCGTATCTACTGATGGTCTCAGACCAAGTTTCTATACG
EST: gi|58023915|gb|CX710656.1|CX710656
EST:     CTGGGCTGAGATTTATTACCAG                         GCACGTGCCGTATCTACTGATGGTCTCAGACCAAGTTTCTATACGATTAAT
genomic: CTGGGCTGAGATTTATTACCAGgcaagttcat ... tgttttgcagGCACGTGCCGTATCTACTGATGGTCTCAGACCAAGTTTCTATACGATTAAT
EST: gi|192314057|gb|FK008797.1|FK008797
EST:     TTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAG                         GCACGTGCCGTATCTACTGATGGTCTCAGACTAAGTTTCTATACGATTAAT
genomic: TTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaagttcat ... tgttttgcagGCACGTGCCGTATCTACTGATGGTCTCAGACCAAGTTTCTATACGATTAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGTCCAACATATCTTACTTGACATGCCTAGTCTTGCTTTCTTTACAACTTATGCGCTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaagttcattctgtggtatatgtacatttactatttttctttttaatgagtatgggatattgctattttggtggcctgattatgagtttatgactttgatgctacatgttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT