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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgttggaatactgataactaaatgcatttctttttcacttttgttgaccctctcatgtttcttctgtgctaaagactagtgggtgaaattttttatagGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAATGAATTCCCCGAAT

Basic information

species Glycine max
transcript GLYMA15G23150.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g52340.1 (Oryza sativa), 3'ss of exon 2
-tatgttggaatactgataactaaatgcatttctttttcacttttgttgaccctctca-tgtttcttctgtgctaaagactagtgggtgaaattttttat--agGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAATGAATTCCCCGAAT
   | ||  | |  || |||||   || ||   |    ||   |   ||||  |   | |      ||      |   ||| ||   |    ||| || |  |||| || || |||||||||||||||||||||||||||||||| ||||||||| |  |||| |||||||| ||||| ||||| || ||||| || || ||  
gactattttatt--tgttaactttgtgtatgattgcaccaaaata--tgacattgaaaataaacactcaaaaaaattcacttgtttatttgctttcttgtttagGTTAAATTGTGGTGTGACTGCCCTTTCTGGCCTGATGATGGAATGTGTCGGCTTAGGGATTGTAGTGTCTGTGAGTGCCCAGAGAATGAGTTTCCTGAGC

upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G521844_T01 (Zea mays), 3'ss of exon 2
------tatgttggaatactgataactaaatgcatttctttttcacttttgttgaccctctcatgtttcttctgtgctaaagactagtgggtgaaattttttata-gGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAATGAATTCCCCGAAT
              |||||| | |  ||||   |     |||   |  | |       |  |   | | ||||  |  |    ||  |   ||   | |||| || ||| || || ||||||||||||||||| ||||| |||||||| |||||   | |  | || |||||||| ||||| ||| | || ||||| ||||||||| 
tgtgatgccaccaaaatactcaca-ttaaaaataaaaaatttctgcagtggccag---tggctcatctgttctaagtcacgtgctgttccttg---tcttttgtaagGTTAAATTGTGGTGTGACTGCCCTTTTTGGCCCGATGATGGAATGTGCAAGCTTAGAGATTGTAGTGTTTGTGAGTGCTCAGAGAATGAGTTCCCCGAAC

upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G108115_T01 (Zea mays), 3'ss of exon 2
-tatgttggaatactgataactaaatgcatttctttttcacttttgttgaccctctcatgtttcttctgtgctaaagacta-gtgggtgaaattttttatagGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAATGAATTCCCCGAAT
 ||| |  |||||    || | ||||||  |  | ||  |  |    |         ||| ||| ||||| ||||    |  || | |     | |||  |||| || || ||||||||||||||||| ||||| |||||||| |||||   | |  | || |||||||| ||||| || || || ||||| ||||| ||| 
ctatatgtgaatatgactaccaaaatgc--tcatattaaaaataaaatttttaagcaatggttcatctgttctaagtcgtgtgttgttccttgtcttttaagGTTAAATTGTGGTGTGACTGCCCTTTTTGGCCCGATGATGGAATGTGCAAGCTTAGAGATTGTAGTGTTTGTGAGTGTCCGGAGAATGAGTTCCCTGAAC

upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G38960.3 (Arabidopsis thaliana), 3'ss of exon 2
tatgttggaatactgataactaaatgcatttctttttcacttttgttgaccctctcatgtttcttctgtgctaaagactagtgggtgaaattttttatagGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAATGAATTCCCCGAAT
              | |   |      ||||||| ||   |  ||           | | ||     |||        |||      |    ||| |||||| ||  | |||||||| ||||| || |||||||||||||||||||| |||||  | ||||| ||||| |||||||| |||||||  || ||||| ||| 
--------------gttggtt---catatttcttctttgatcatgaaagtatctagaggatttggaggtgtgttgtgataggtttgaatgcgtttaatagGTTAAACTGTGGTGTGATTGCCCGTTTTGGCCTGATGATGGCATGTGCCGGTTAAGAGACTGCAGTGTTTGTGAATGTCCTGAAAGCGAGTTCCCTGAAG

upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 2
tatgttggaatactgataactaaat--gcatttctttttcacttttg-ttgaccctctcatgtttcttctgtgctaaagactagtgggtgaaattttttatagGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAATGAATTCCCCGAAT
  ||||       | |||  | |||    |||   ||||| ||| || |||||   |  || |  | | |   || ||| ||  ||    |  | | |  ||||  ||||| ||||||||||||||||||||||  |||||||| ||||| |  |||||||| || ||||| ||||||||||| |||||||| ||||| ||| 
-ttgtttattctgttatacttcaattgatattgtgttttcgcttatgcttgactgacctatatcccatttt--ctgaagcctgttgatccatttctatggtagGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA

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|13477810|gb|BG507539.1|BG507539
EST:     ACCCTTCCCTCCAGGAGCTCGTGAAGACCCCTTTCTTTCGATATTTTAAG                         GTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGG
genomic: ACCCTTCCCTCCAGGAGCTCGTGAAGACCCCTTTCTTTCGATATTTTAAGgtttgcttat ... ttttttatagGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaccctctcatgtttcttctgtgctaaagactagtgggtgaaattttttatagGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAATGAATTCCCCGAAT
                       tgctaaa  putative branch site (score: 2)
                                             ttttttat  putative PPT
                                        tgaaattttttata  TA-rich tract