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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcaactcaccaacattaacataattttttatttaatataagtccaaacaataacctcttaattaaatcttaaatttgattgtcgttttaatcaaataaattttatgcagTGGTTTGAGGTTCTTGATGGACTCCTCGGGAAGCACTGGAGAAACGTGGGTTTGGCCTTTAACTGCACATTTCTTCTGTTTGGATCTGTTATACAACTGA

Basic information

species Glycine max
transcript GLYMA12G03490.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G03490.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g05690.1 (Oryza sativa), 3'ss of exon 1
gttcaactcaccaacattaacataattttttatttaatataagtccaaacaataacctcttaattaaatcttaaatttgattgtcgttttaatcaaata-aattttatgc-agTGGTTTGAGGTTCTTGATGGACTCCTCGGGAAGCACTGGAGAAACGTGGGTTTGGCCTTTAACTGCACATTTCTTCTGTTTGGATCTGTTATACAACTGA
 || |  |  |   | |||  |||   |  ||||  |||   |  | || |        ||||  | || | ||||  |   || | | |  | | | |   |||| | | ||||||||||||| || ||||| || || |||| ||||||||| || |||||  ||||||| |||||||| ||| | ||||| || || || || |||||||
-ttta--tggctggcttta-tatagcctactatt--atacctgctctaatatcg-----ttaacgatatat-aaatcagtacgt-gatatggtgatacatgtttttgtaccagTGGTTTGAGGTGCTGGATGGGCTACTGGGGAGGCACTGGAGGAATGTGGGACTGGCCTTCAACTGCACGTTTTTGCTGTTCGGGTCGGTGATCCAACTGA

upper sequence: GLYMA12G03490.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G045057_T02 (Zea mays), 3'ss of exon 2
-----------------------------------gttcaactcaccaacattaacataattttttattt-aatataagtccaaacaat-aacctcttaattaaatcttaaatt--tgattgtcgttttaatcaaataaattttatgcagTGGTTTGAGGTTCTTGATGGACTCCTCGGGAAGCACTGGAGAAACGTGGGTTTGGCCTTTAACTGCACATTTCTTCTGTTTGGATCTGTTATACAACTGA
                                   | |      ||    |||    |  ||    ||||   | | | |  | || || |     ||    ||||  || |    | |||||| ||||  ||     |       |||||||||||||||||| ||||| || || |||||||||||||| ||||| ||  |   ||| |||||||| || || || || || || || || || || |
gtgcgtgtgtcatgtgtatatatatatgactatttgctagctatacttgtattttgtttgttccaaattttggtttgaattaacaccatcagaagtttgtggaaattctacaccaataattgtcttttttttctggggagcc----gcagTGGTTTGAGGTTCTGGATGGGCTACTGGGGAAGCACTGGAGGAACGTCGGCCTCTTCTTCAACTGCACTTTCCTCCTCTTCGGCTCCGTCATCCAGCTCA

upper sequence: GLYMA12G03490.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 2
gttcaactcaccaacattaacataattttttatttaatataagtccaaacaataacctcttaattaaatcttaaatttgattgtcgttttaatcaaataaattttatgcagTGGTTTGAGGTTCTTGATGGACTCCTCGGGAAGCACTGGAGAAACGTGGGTTTGGCCTTTAACTGCACATTTCTTCTGTTTGGATCTGTTATACAACTGA
           |   | | |  |  | | ||||| ||  ||  |       ||    | |  |  ||| |    ||||||   |  | ||  | ||        | || ||||||||||||||||||||||| | || |||||||| ||||| || || ||||| |||||||||||||| || ||||| ||||||||||| || ||||| |
-------gtttctttactgatcttttctattattcaaagtatatatctgacatgttttttgtacaaaaac----atttgac-atgttgttggttaa--------tgtgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA

upper sequence: GLYMA12G03490.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 2
gttcaactcaccaacattaacataattttttatttaatataagtccaaacaataacctcttaattaaat-cttaaatttgattgtcgt--tttaatcaaataaattttatgcagTGGTTTGAGGTTCTTGATGGACTCCTCGGGAAGCACTGGAGAAACGTGGGTTTGGCCTTTAACTGCACATTTCTTCTGTTTGGATCTGTTATACAACTGA
||     |||  |  | |  |   |||| || | |  ||  | |         | | | || ||  | | |  | ||  | || ||    ||| ||    |   || |    |||||||||| ||||||||||| || || || || |||||||| |||||||| ||||| || |||||||| ||||||||||||||||| || || ||||| |
gtcttgatcagtactact--ccccatttcttctctcctaccact----gttccatctttttgatccatttcccacatggggttctcacactttcatgtgttttcttgtcaaaagTGGTTTGAAGTTCTTGATGGGCTGCTTGGCAAACACTGGAGGAACGTGGGGTTGGCTTTCAACTGCACTTTTCTTCTGTTTGGATCCGTGATTCAACTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttaattaaatcttaaatttgattgtcgttttaatcaaataaattttatgcagTGGTTTGAGGTTCTTGATGGACTCCTCGGGAAGCACTGGAGAAACGTGGGTTTGGCCTTTAACTGCACATTTCTTCTGTTTGGATCTGTTATACAACTGA
                              ttttaat  putative branch site (score: 3)
              ttaaatttgattgtcg  TA-rich tract