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'   
22  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTCAGTGTTAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatggttaataattatgctgagttcaatttataatgagtctcctctatctttctaaaaattcataactccattattctgaacag

Basic information

species Glycine max
transcript GLYMA02G36440.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G36440.1 (Glycine max), 5'ss of exon 12
lower sequence: AT5G58160.1 (Arabidopsis thaliana), 5'ss of exon 6
AGCTCAGTGTTAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatggttaataattatgctgagttcaatttataatgagtctcctctatctttctaaaaattcataac-tccattattctgaacag--------------------------------------------
| ||||||| | ||||||||||| || || || ||||||||||||||||||| || |||||||| || |||| ||| |||||||| ||||| ||||| | | || || ||| ||| | | | || | | || || | ||||| | | | | |||
AACTCAGTGCTTAACCTGGAGGAGTCGGCTCTTGATGCTGATCAGGTTGAGAACCTAATTAAGTTTTGCCCAACAAGAGAAGAGATGGAGTTACTAAAGgt--ataagacgtgtactcctag-aataatgttcaactgctttgttttccaaagtcggaagtccctagaaaaaattggggtgttctgtgatctagcttttgtatgttcttttgacatttcttcatttcatactcggtttgtag

upper sequence: GLYMA02G36440.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv11s0016g00160.t01 (Vitis vinifera), 5'ss of exon 7
AGCTCAGTGTTAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatgg--ttaataattatgctgagttcaatttataatgagtctcctctatc-------tttctaaaaattcataactccattattctgaacag-------------------------------------------------------------------
| |||||| | || | ||||| ||||| |||| |||||||||||| |||||||||||||||||||| |||||||| ||||| || |||||||||| || | || | | ||||| | | | | | || | | || | | ||| ||||| |||| || | | ||| | | |
AATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAGgtatagagttatgttgttgaattaatttctttattcactattatatgcattgtgacattagcatcagtgttttttcttgaaat--attatttcataccctttgatatttaaatctagttcctttatgaaaatgaccgtttttagccatgatcaaacttttatttccatgtttag

upper sequence: GLYMA02G36440.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ15040 (Selaginella moellendorffii), 5'ss of exon 7
AGCTCAGTGTTAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatggttaataattatgctgagttcaatttataatgagtctcctctatctttctaaaaattcataactccattattctgaacag
| || | |||| |||| | | ||| ||| || ||||||||||| || || || ||||||||||| ||||| |||||||||||| || |||||| || || | || | || ||| | || ||| | | | | ||| |
AAAGCAATACTAGCGTTGGATGGGACAGTACTGGATGTAGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACAAAGGAGGAGATGGAAACGCTCAAGgtt------ttatttccagata-tgatcttgcc--atctaacttaca------cgctggtggttttgcag----------------------------

upper sequence: GLYMA02G36440.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ38303 (Selaginella moellendorffii), 5'ss of exon 1
AGCTCAGTGTTAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatggttaataattatgctgagttcaatttataatgagtctcctctatctttctaaaaattcataactccattattctgaacag
||| ||| || ||||||||||| || || || ||||||||||| ||||| |||||||||||| || |||||| || || | || | || ||| | || ||| || | | |
------------------------ACAGTACTGGATGTAGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACAAAGGAGGAGATGGAAACGCTCAAGgtt------ttatttccagata-tgatcttgcc--atctaacttacgctggtggttttgcag------------------------------------

upper sequence: GLYMA02G36440.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ37653 (Selaginella moellendorffii), 5'ss of exon 7
AGCTCAGTGTTAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatggttaataattatgctgagttcaatttataatgagtctcctctatctttctaaaaattcataactccattattctgaacag
| || | |||| |||| | | ||| ||| || ||||||||||| || || || ||||||||||| ||||| |||||||||||| || |||||| || || | || | || ||| | || ||| | | | | ||| |
AAAGCAATACTAGCGTTGGATGGGGCAGTACTGGATGTAGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACAAAGGAGGAGATGGAAACGCTCAAGgtt------ttatttccagata-tgatcttgcc--atctaacttaca------cgctggtggttttgcag----------------------------

upper sequence: GLYMA02G36440.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ38305 (Selaginella moellendorffii), 5'ss of exon 4
AGCTCAGTGT-TAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatggttaataattatgctgagttcaatttataatgagtctcctctatctttctaaaaattcataactccattattctgaacag
||||| | ||| ||| ||| ||| || ||||||||||| || || || ||||||||||| ||||| |||||||||||| || |||||| || || | || | || ||| | || |||| || | | |
CACTCAGAAAGCAATACTATGGGA--CAGTACTGGATGTAGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACAAAGGAGGAGATGGAAACGCTCAAGgtt------ttatttccagata-tgatcttgcc--atctaacttatgctggtggttttgcag------------------------------------

upper sequence: GLYMA02G36440.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ14916 (Selaginella moellendorffii), 5'ss of exon 4
AGCTCAGTGT-TAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatggttaataattatgctgagttcaatttataatgagtctcctctatctttctaaaaattcataactccattattctgaacag
||||| | ||| ||| ||| ||| || ||||||||||| || || || ||||||||||| ||||| |||||||||||| || |||||| || || | || | || ||| | || ||| || | | |
CACTCAGAAAGCAATACTATGGGA--CAGTACTGGATGTAGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACAAAGGAGGAGATGGAAACGCTCAAGgtt------ttatttccagata-tgatcttgcc--atctaacttacgctggtggttttgcag------------------------------------

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|58023146|gb|CX709887.1|CX709887
EST:     AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAG                         GGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG
genomic: AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagat ... ttctgaacagGGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG
EST: gi|7587962|gb|AW703768.1|AW703768
EST:     AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAG                         GGTTATAATGGGGAAAAGGAGAAGTTGGGAAGATGCGAACAG
genomic: AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagat ... ttctgaacagGGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG
EST: gi|57574575|gb|CX547550.1|CX547550
EST:     AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAG                         GGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG
genomic: AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagat ... ttctgaacagGGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG
EST: gi|10236909|gb|BE805797.1|BE805797
EST:     AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAG                         GGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG
genomic: AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagat ... ttctgaacagGGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG
EST: gi|17020797|gb|BM091831.1|BM091831
EST:     AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAG                         GGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG
genomic: AGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagat ... ttctgaacagGGTTATAATGGGGAAAAGGAGAAGTTAGGAAGATGTGAACAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCTCAGTGTTAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAGgttggcagattgattatggttaataattatgctgagttcaatttataatgagtctcctctatctttctaaaaattcataactccattattctgaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA