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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATGAAGAATCAACTTCTAGGCGCAAGACTGATGATAATGTTCAGGATGGAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcatgtcttgaaagatggttgtgtgtgtgtttgcagacttgtaagtaatctgatggttttctatttttag

Basic information

species Glycine max
transcript GLYMA10G00490.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G00490.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G06360.1 (Arabidopsis thaliana), 5'ss of exon 4
GCATGAAGAATCAACTTCTAGGCGCAAGACTGATGATAATGTTCAGGATGGAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcatgtcttga----aagatg-gttgtgtgtgtgtttgcagacttgtaag-----taatctgatggttttctatttttag------
||||||||| ||| | || ||||| ||| ||||||| ||||||||||| |||||||||||||||||||| |||||||||||  |||| ||  | || ||||  ||||  | | ||      ||| || | | | | |   | || |   | || |      ||   | |    | | | ||||| |      
GCATGAAGAGTCATCATCAAGGCGTAAGGCTGATGAGAATGTTCAGGAAGGAGCTGTTCCTGCTTATCTTCTTGATCGTGAAGACACCACTCGTGCCAAGgtttgtttgttttttcttttcaagttgagatatctataattctgtaacttggtgacggcattacattaacaagtgtgtgtttttgggtgtag

upper sequence: GLYMA10G00490.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0105g00280.t01 (Vitis vinifera), 5'ss of exon 4
GCATGAAGAATCAACTTCTAGGCGCAAGACTGATGATAATGTTCAGGATGGAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgc------------atgttcatgtcttgaaagatggttgtgtgtgtgtttgcagacttgtaagtaatctgatggttttctatttttag
||||||||||||| | ||||||||||||   |||||| ||||||| || || ||||||||||| ||||| || |||||||| |  || ||  | |||||||             |||| | | |  |  || |        |||   ||  ||  ||  |     ||||||   | |||| | | |||
GCATGAAGAATCATCATCTAGGCGCAAGGTGGATGATGATGTTCATGAAGGGGCTGTTCCTGCCTATCTACTAGATCGTGAAACAACAACACGTGCAAAGgtctattgctgttgatgtacttattatcgaatacaaactcatgtacatt-acatgctctttgtggatctgacattattctgtctatag
















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|26059399|gb|CA802313.1|CA802313
EST:     AGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACTATCTAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: AGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGA-CCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|11413156|gb|BF425167.1|BF425167
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|17400258|gb|BM177032.1|BM177032
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|20498024|gb|BQ272954.1|BQ272954
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|15813104|gb|BI785379.1|BI785379
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|298179957|gb|HO025172.1|HO025172
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|5606189|gb|AI900287.1|AI900287
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|298178157|gb|HO027540.1|HO027540
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|209725840|gb|BW654703.1|BW654703
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|120530814|gb|EH258947.1|EH258947
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|298182139|gb|HO026314.1|HO026314
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|298189817|gb|HO038220.1|HO038220
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|192329667|gb|FK022933.1|FK022933
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|192333080|gb|FK026409.1|FK026409
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
EST: gi|120530581|gb|EH258714.1|EH258714
EST:     GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAG                         GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG
genomic: GAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcat ... ctatttttagGTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCATGAAGAATCAACTTCTAGGCGCAAGACTGATGATAATGTTCAGGATGGAGCTGTTCCTGCTTATCTCCTTGATCGTGATAACACGACCAGAGCAAAGgcatgttcatgtcttgaaagatggttgtgtgtgtgtttgcagacttgtaagtaatctgatggttttctatttttag

- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG