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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatgtttaaacttcaagcttttttaaaaaaatgtttaaacttcaaacatgttagattgttgtctctgtaattctttatttgtattttccttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGATCACTTCAACCAGGTGAAACTCGAAAATATGGCACAACCATTGCACCTGG

Basic information

species Glycine max
transcript GLYMA18G20800.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G20800.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 7
--acatgtttaaacttcaagcttttttaaaaaaatg---tttaaacttcaaacatgttagattgttgtctctgtaattctttatttgtattttccttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGATCACTTCAACCAGGTGAAACTCGAAAATATGGCACAACCATTGCACCTGG
     || |   | ||  |  |||| |  |    |    |||    || |   ||| ||  |       ||  |||| | ||| ||||||    |||  | |||||||||||||| ||||| ||| | || |||||||||||||||||||||||| | || |||||||| ||||  ||||||||||| ||||| |||||||||| 
aattttggtgctattttgaatttttatttactttttcctttttctgttgaggtatgctacttaaaaacttcaataatgccttaattgtat----cttgatacagGATGGAAAAATTGAAGCTGAGGTTAAACTCACAGGAATTCTCAGCTTAGGAGCCCTGCAACCAGGGGAAATCCGAAAATATGGTACAACTATTGCACCTG-

upper sequence: GLYMA18G20800.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ19345 (Selaginella moellendorffii), 3'ss of exon 5
acatgtttaaacttcaagcttttttaaaaaaatgtttaaacttcaaacatgttagattgttgtctctgtaattctttatttgtattttccttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGATCACTTCAACCAGGTGAAACTCGAAAATATGGCACAACCATTGCACCTGG
                                                 |   |  |||||      || |    || ||  |   | |  |  | ||||||||||||||||| || ||| | |||||||| || ||||||||| | ||| ||||||   | || ||||   | ||||| || ||    || || |||| 
------------------------------------------------gtaagaacttgttaatggagtgacggcttgttactccgtgc--tagtacagGATGGAAAAATAGAGGCTGAGGTGAAGCTCACGGGGATTCTCAGCCTGGGAGCACTTCGTGCTGGAGAAATCAGGAAATACGGGACTGTTATAGCTCCTG-
















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|21256389|gb|BQ453277.1|BQ453277
EST:     ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACCTTTATCAGG                         ATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
genomic: ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGGcaagttaaat ... ttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
EST: gi|23729021|gb|BU762587.1|BU762587
EST:     ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACCTTTATCAGG                         ATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
genomic: ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGGcaagttaaat ... ttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
EST: gi|151405881|gb|EV275696.1|EV275696
EST:     ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGG                         ATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAG-AT
genomic: ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGGcaagttaaat ... ttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
EST: gi|193435597|gb|FK402407.1|FK402407
EST:     ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGG                         ATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
genomic: ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGGcaagttaaat ... ttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
EST: gi|21887761|gb|BQ740974.1|BQ740974
EST:     ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGG                         ATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
genomic: ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGGcaagttaaat ... ttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
EST: gi|18733865|gb|BM527856.1|BM527856
EST:     GGATTTTTCTGGCACTTTTATCAGG                         ATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
genomic: GGATTTTTCTGGCACTTTTATCAGGcaagttaaat ... ttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
EST: gi|151405414|gb|EV275228.1|EV275228
EST:     ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGG                         ATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
genomic: ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGGcaagttaaat ... ttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
EST: gi|192322691|gb|FK014382.1|FK014382
EST:     ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTACCAGG                         ATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT
genomic: ATGCACTGTGGCTAACTATGAGTATGGATTTTTCTGGCACTTTTATCAGGcaagttaaat ... ttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatgttagattgttgtctctgtaattctttatttgtattttccttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGATCACTTCAACCAGGTGAAACTCGAAAATATGGCACAACCATTGCACCTGG
                          ttctttatttgtattt  CT-rich tract
                     tgtaattctttatttg  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acatgtttaaacttcaagcttttttaaaaaaatgtttaaacttcaaacatgttagattgttgtctctgtaattctttatttgtattttccttccttcaggATGGAAAAATAGAAGCAGAGATCAAGCTCACAGGAATTCTCAGCTTAGGATCACTTCAACCAGGTGAAACTCGAAAATATGGCACAACCATTGCACCTGG

-catgttt
- - - - - - ttcaagc
- - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - -caaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtc