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'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGCATTGAGGGGTCTGATATGGAATTTGCCGCTTACAACTTGCTTTGTGTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctccttacttacatgcttacttgattcttttttccaaaaaaattgttagaactgaattatgtcatgtgattcatcatccatctgaatttcgtgat...

Basic information

species Glycine max
transcript GLYMA20G38620.2
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38620.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv13s0067g03720.t01 (Vitis vinifera), 5'ss of exon 5
AAGGCATTGAGGGGTCTGATATGGAATTTGCCGCTTACAACTTGCTTTGTGTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcc-ttacttacatgcttacttgattcttttttccaaaaaaattgttagaactgaattatgtcatgtgattcat---catccatctg-aatttcgtgat--
|||| |||||||| | ||||||||||||||| ||||||||| ||||||||| |||  |||| || | |||||||||||||||  | ||||||||| |||||| || | | || |  |||    |   || ||  |||       |    | |  ||| ||  ||  || |||| | || |    ||  |  || | | |  || |  
AAGGAATTGAGGGATGTGATATGGAATTTGCTGCTTACAACCTGCTTTGTGCCATCTTGCACTCTAGTAATAACAGAGATCTGTTGTCATCAATGTCAAGgtcagttgcattgccgacaaatgtctatgctttgtttgc-----atgcctttctgaattggctt--gttatgtcactcctgcttatgaagttgtagtgtgatggtgg
















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|6566150|gb|AW233787.1|AW233787
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|207796889|gb|GD771905.1|GD771905
EST:     AACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: AACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|207773662|gb|GD745724.1|GD745724
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|208049358|gb|GD849311.1|GD849311
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|208220922|gb|GE018058.1|GE018058
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|193396881|gb|FK365015.1|FK365015
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|58019863|gb|CX706605.1|CX706605
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|208062833|gb|GD861121.1|GD861121
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|207765343|gb|GD738584.1|GD738584
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|208207228|gb|GE008451.1|GE008451
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|208301196|gb|GE100779.1|GE100779
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGACCG
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTG-CCG
EST: gi|19269696|gb|BM885952.1|BM885952
EST:     CAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: CAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
EST: gi|193328208|gb|FK293445.1|FK293445
EST:     GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAG                         GTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT
genomic: GTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctcct ... tcaataccagGTTATCTCACGAAGCAAAGAAGGATGAAGCTGTAAAACATGCCCTTGCCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGGCATTGAGGGGTCTGATATGGAATTTGCCGCTTACAACTTGCTTTGTGTCATAATGCATTCAAATAATAACAGAGATCTTGTATCATCAATGGCAAGgttagctccttacttacatgcttacttgattcttttttccaaaaaaattgttagaactgaattatgtcatgtgattcatcatccatctgaatttcgtgat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaat