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'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGACCTGCTGATCCTGAGGAAGAACTCCGATGGATGTCACAAGAAGTTCGTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttctgcttttaacattttctatttatataattttttcagtttttccagttaatgcttgatgcattttctggttgcttggtttacag

Basic information

species Glycine max
transcript GLYMA09G00430.2
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 5'ss of exon 19
AAGACCTGCTGATCCTGAGGAAGAACTCCGATGGATGTCACAAGAAGTTCGTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttctgctt----ttaacattttctatttatataattttttcagtttttccagttaatgcttgatgcattttctggttgcttggtttacag
 ||||||||||||||||| ||||||||  |||||||||| || ||||||||||| |||||||| || ||||| |||||| | || || ||||| || |||||   | |           || ||||    ||||   |      |    || |  || |   | |||  ||  |||||   ||   |  |      
GAGACCTGCTGATCCTGAAGAAGAACTTAGATGGATGTCCCATGAAGTTCGTGGTTATGTTGAGGCTGTTTTGAATAGTCTGGCAGCAAATGTCCCAAAGgtttacattaaaaaaaagctagcattgctcatttcattggaccctgtcattgtggcaat--gttcttattgttttttccccttctcttatcag---

upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 5'ss of exon 19
AAGACCTGCTGATCCTGAGGAAGAACTCCGATGGATGTCACAAGAAGTTCGTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttctgcttttaacattttct-----atttatataattttttcagttt--ttccagttaatgcttgatgcattt--tctggttgcttggtttacag----
 |  |||||||||||||| |||||||| || |||||||| |||||||||||||| ||||| || || ||||| || ||||| || || ||||| || |||||   | | ||    | ||| ||  |     | | |||  ||||||| |  |   ||  |  |  |  | | |||| ||  | |  |||  |  || |       
GAAGCCTGCTGATCCTGAAGAAGAACTTCGGTGGATGTCTCAAGAAGTTCGTGGTTATGTAGAGGCTGTTTTGAACAGTTTGGCAGCAAATGTTCCAAAGgtttacatttgaacctcacaattgtttcaacagtcatactattttttaaactcaatttaacatggtcatagttgcaattgttattattgtctttttcatgatcag

upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM5G870253_T01 (Zea mays), 5'ss of exon 3
AAGACCTGCTGATCCTGAGGAAGAACTCCGATGGATGTCACAAGAAGTTCGTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttctgcttttaacattttctatttatataattttttcagtttttccagttaatgcttgatgcattttctggttgcttggtttacag
 || |||||||||||||| |||||||| ||||||||||| |||||||| ||||| ||||||||||| ||||| || ||||| ||||| ||||| || |||||    || | ||  || | |    |  || | | |   ||    ||| |  ||| || | |   |   | || ||  ||    |       
GAGGCCTGCTGATCCTGAAGAAGAACTTCGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTTTGAACAGTTTGGCTGCAAATGTTCCAAAGgt----ttgtactcgtagcttcagttgattctttgaaccttgtgatttgtggagt-aacgttcttt-tgtcttttgcatgaccag-------

upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM5G811223_T01 (Zea mays), 5'ss of exon 7
AAGACCTGCTGATCCTGAGGAAGAACTCCGATGGATGTCACAAGAAGTTCGTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgta-agcttctgcttttaacattttctatttatataattttttcagtttttccagttaatgcttgatgcattttctggttgcttggtttacag
 ||||| ||||||||||| ||||||||  |||||||||| |||||||||||||| |||||||| || ||||| |||||| | || || ||||| ||||||||  |  || | || ||||     ||  |||| ||    || |   | | || | ||     |   ||  | | || |||             
GAGACCAGCTGATCCTGAAGAAGAACTTAGATGGATGTCTCAAGAAGTTCGTGGTTATGTTGAGGCTGTTTTGAATAGTCTGGCAGCAAATGTTCCGAAGgttcatattgttctgttaa-----tcagtttaaatggccttgtatttgtgtcaaattttcattgcttgtctgtacttgttag-----------

upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G157462_T01 (Zea mays), 5'ss of exon 19
AAGACCTGCTGATCCTGAGGAAGAACTCCGATGGATGTCACAAGAAGTTCGTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttctgcttttaacattttctatttatataattttttcagtttttccagttaatgcttgatgcattttctggttgcttggtttacag
 ||||||||||||||||| ||||||||  |||||||||| |||||||||||||| ||||| || || ||||| |||||| | || || ||||| || |||||     |  |  | | |      |  |||| ||    ||||   | | || | ||  |  |   ||  | | || |||             
TAGACCTGCTGATCCTGAAGAAGAACTTAGATGGATGTCTCAAGAAGTTCGTGGTTATGTCGAGGCTGTTTTGAATAGTCTGGCAGCAAATGTTCCAAAGgttcatattggtctgtcaa----ccagtttaaatggccttttatttgtgtcaaattcttattgtttgtctgtacttgttag-----------

upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 19
lower sequence: Vv18s0089g00350.t01 (Vitis vinifera), 5'ss of exon 19
AAGACCTGCTGATCCTGAGGAAGAACTCCGATGGATGTCACAAGAAGTTCGTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttctgcttttaacattttctatttatataattttttcagtttttccagttaatgcttgatgcattttctggttgcttggtttacag
||||||||| || || || |||||||| ||||||||||| |||||||| ||||| ||||||||||| |||||||| ||| | ||||||||||| || || ||||||   ||    | |  | |  | |||  ||  ||   || | |     |   ||||||||    | | | || | | ||||||  |||
AAGACCTGCCGACCCAGAAGAAGAACTTCGATGGATGTCTCAAGAAGTGCGTGGCTATGTTGAAGCGGTTTTAAACAGTCTGGCTGCTAATGTCCCTAAAgtaagcacttgtccctgaattctcatttttgcatctttacatctggtcactta-caaatgcttg----aatatgtgatcgattggttggcag

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|5677594|gb|AI938724.1|AI938724
EST:     GTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAG                         GCAGATGTCCTTTGTCAAGTTGAAAAGGCTAAGGAAGACATGCTGAATCAA
genomic: GTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttct ... tggtttacagGCAGTTGTCCTTTGTCAAGTTGAAAAGGCTAAGGAAGACATGCTGAATCAA
EST: gi|15000625|gb|BI321439.1|BI321439
EST:     GTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAG                         GCAGTTGTCCTTTGTCAAGTTGAAAAGGCTAAGGAAGACATGCTGAATCAA
genomic: GTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttct ... tggtttacagGCAGTTGTCCTTTGTCAAGTTGAAAAGGCTAAGGAAGACATGCTGAATCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGACCTGCTGATCCTGAGGAAGAACTCCGATGGATGTCACAAGAAGTTCGTGGATATGTTGAAGCAGTTTTAAATAGTTTAGCTGCTAATGTACCGAAGgtaagcttctgcttttaacattttctatttatataattttttcagtttttccagttaatgcttgatgcattttctggttgcttggtttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT