Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagcccccaaagggcaccttggaatcctattcagtagacatttcgtggtgtatgctattcttcattcctttctcacgaggtatggtttgtgttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG

Basic information

species Glycine max
transcript GLYMA02G33320.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G33320.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g04700.t01 (Vitis vinifera), 3'ss of exon 3
gagcccccaaagggcaccttg----gaatcctattcagtagacatttcgtggtgtatgctattcttcattcctttctcacgaggtatggtttgtgttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
      | | |    | |||     | |  || | ||    |    |  || | ||   |||       ||     | || |   |   ||    ||   |||||||||||||||||| ||||||| || ||||||||
----tacaagattaaatcttatagaggactctgtccatagaatgaattttgttctaaaatatgaccatctctgacttgactaatgaaaattaccattaccgcagTTGAAGAAGATGTGCAAAGAAGCTGCATATTGGG
















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|213600861|gb|DB968825.1|DB968825
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|193311596|gb|FK278082.1|FK278082
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGAT
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGAT
EST: gi|213590361|gb|DB971523.1|DB971523
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGGAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|31561930|gb|CD487768.1|CD487768
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|209710522|gb|BW662058.1|BW662058
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|7639460|gb|AW733782.1|AW733782
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|193472539|gb|FK434924.1|FK434924
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTG
EST: gi|192334661|gb|FK025880.1|FK025880
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|10255267|gb|BE823033.1|BE823033
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|193547133|gb|FK502428.1|FK502428
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|209710523|gb|BW662059.1|BW662059
EST:     ATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATCTTGGG
genomic: ATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|17023100|gb|BM094134.1|BM094134
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|46492865|gb|CN472421.1|CN472421
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|192334662|gb|FK025881.1|FK025881
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|214006081|gb|DB986005.1|DB986005
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|298170437|gb|HO019061.1|HO019061
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|192314746|gb|FK005986.1|FK005986
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|209713426|gb|BW679241.1|BW679241
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|193370158|gb|FK336734.1|FK336734
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGAT
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGAT
EST: gi|209703490|gb|BW683351.1|BW683351
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTG-AGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|208178822|gb|GD979615.1|GD979615
EST:     TCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: TCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|209722595|gb|BW679844.1|BW679844
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTG-AGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|192314745|gb|FK005985.1|FK005985
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|209706732|gb|BW676046.1|BW676046
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|193721750|gb|FK658234.1|FK658234
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTA
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTA
EST: gi|209703489|gb|BW683350.1|BW683350
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTG-AGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|209706733|gb|BW676047.1|BW676047
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|209722594|gb|BW679843.1|BW679843
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTG-AGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|193381913|gb|FK348442.1|FK348442
EST:     TTCGAG-AAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: TTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
EST: gi|6915982|gb|AW397512.1|AW397512
EST:     GGAATATCTCAAGTCATGATTTCGAGAAAACG                         TTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
genomic: GGAATATCTCAAGTCATGATTTCGAGAAAACGgtaagttcgc ... gttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtatgctattcttcattcctttctcacgaggtatggtttgtgttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG
                        ttctcac  putative branch site (score: 2)
          tattctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gagcccccaaagggcaccttggaatcctattcagtagacatttcgtggtgtatgctattcttcattcctttctcacgaggtatggtttgtgttgttgcagTTGAAGAAGATGTGTAAAGAAGGTGTATATTGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - ccccaaa
- - - - - - - caccttg
- - - - - - - - - - - - - ctattca
- - - - - - - - - - - - - - - - - - - - - - gtggtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtttg