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

gtatagtatactgatgacgagtgagtttgtcaatacttgtttaagtttttttgttgatttcatatgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCATCCTTTCTTGGC

Basic information

species Glycine max
transcript GLYMA02G45610.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G45610.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv02s0025g01350.t01 (Vitis vinifera), 3'ss of exon 7
-----------------gtatagtatact--gatgacgagtgagtttgtcaatactt----gtttaagtttttttgttgatttcatatgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCATCCTTTCTTGGC
| | ||| || || | ||||| | || |||||| || ||||| ||| | ||||||||||||||| ||||| || ||||||||||| | ||| ||||||| || |||||| | ||
gttgaatatcactttttatgaaatattctaggaaaattttccagttttttcatggcattgagtttaatggaagctgctgattctgtatttttcccagGGCAATGAAAATAGTCAGAAAAAGGTTTCTTTAGTAGGTCCTGCTCTCCACCCTTTCCTTGC
















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|192323691|gb|FK015997.1|FK015997
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|208041747|gb|GD843463.1|GD843463
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|208146996|gb|GD950613.1|GD950613
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGAC-ATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|193370049|gb|FK336359.1|FK336359
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAGACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|4282637|gb|AI440556.1|AI440556
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|208153997|gb|GD953958.1|GD953958
EST:     ACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: ACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|19271064|gb|BM887320.1|BM887320
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACANTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCGT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|192323617|gb|FK017483.1|FK017483
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAAGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|151404405|gb|EV274215.1|EV274215
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|208080975|gb|GD873831.1|GD873831
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAAGTCACAAGAAAGGTTTACTTTGATGGGTGCTGCTCTT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAAC-AGTCACAAG-AAGGTTT-CTTTGATGGGTGCTGCTCTT
EST: gi|19271087|gb|BM887343.1|BM887343
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
EST: gi|193638162|gb|FK586656.1|FK586656
EST:     TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAG                         GGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT
genomic: TGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAAGgtatagtata ... tgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgagtttgtcaatacttgtttaagtttttttgttgatttcatatgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCATCCTTTCTTGGC
                                tgttgat  putative branch site (score: 4)
 aatacttgtttaagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatagtatactgatgacgagtgagtttgtcaatacttgtttaagtttttttgttgatttcatatgctgtccagGGCAATGAAAACAGTCACAAGAAGGTTTCTTTGATGGGTGCTGCTCTTCATCCTTTCTTGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT