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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccgtatttgtgattaatcttcatacattaaaatctctgatgatgcttgattgttttgataactgtgctttttgtttatcttttcagATTGGCCTATCTTCATGAGGGTCTTGAACCGAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTTATTGATCGCCAATGGAACTCCAAGGTTTCC

Basic information

species Glycine max
transcript GLYMA09G39160.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G39160.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g03410.1 (Oryza sativa), 3'ss of exon 3
gtaccgtatttg---tgattaatcttcatacattaaaatctctgatgatg--cttgattgt------tttgataactgtgctttttgtttatcttttcagATTGGCCTATCTTCATGAGGGTCTTGAACCGAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTTATTGATCGCCAATGGAACTCCAAGGTTTCC
 ||  ||   ||   || |||| |  |||  |      | |   | ||||   ||||| |         |||  ||||         ||   || |  ||  ||||||||||||||||||| || |||||||| |||||||| || ||  | ||||| || || || ||| |||| |  ||||||||  | || || || 
atattgtcagtggcttgcttaaacaacatcaacagttcttttaaaagatgggtttgatagggaaacacatgaatactgacacccaacttctgctctctagGCTGGCCTATCTTCATGAGGGGCTGGAACCGAAGGTTGTCCATCGTGACATCAAATCTAGCAATATCCTTCTTGACCAGCAATGGAATGCTAAAGTGTCA

upper sequence: GLYMA09G39160.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G01330.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaccgtatttgtgattaatcttcatacattaaaatctctgatgatgcttgattgttttgataactgtgctttttgtttatcttttc--agATTGGCCTATCTTCATGAGGGTCTTGAACCGAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTTATTGATCGCCAATGGAACTCCAAGGTTTCC
||||    |  | ||     |||     | |   || | |||      |    | |||  |||  ||   | |||||| || ||  |  |||||||||||||| ||||||||||||||||||||||| || || || ||  | ||||| ||||| ||  |  ||||||| ||||||||  | ||||| || 
gtac-acttccgagagacgcctttgataactttcatttgtga----attcatctttttctatatgtgatttgtttgttgatattcccgcagATTGGCCTATCTGCATGAGGGTCTTGAACCGAAAGTCGTTCATCGGGACATAAAATCTAGTAATATTTTGCTTGATCGTCAATGGAATGCTAAGGTATCA

upper sequence: GLYMA09G39160.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G01540.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaccgtatttgtgattaatcttcatacattaaaatctctgatgatgcttgattgttttgataactgtgctttttgtttatcttttcagATTGGCCTATCTTCATGAGGGTCTTGAACCGAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTTATTGATCGCCAATGGAACTCCAAGGTTTCC
     |||  | ||    | |||  |   ||    ||| || | ||     |||||| ||     |||     ||  |||| | |  |||||||| ||||| || ||||||||||| || |||||||| || || ||| | |||||||| || ||  |  ||||||||||||||||  | |||||||| 
-----gtaagtctggaatagcttt-tgagttgtcctctatgtttataagctattgttgtg-----tgtaaacctttgttatatctgtagATTGGCGTATCTACACGAGGGTCTTGAGCCAAAAGTTGTTCATCGGGATATTAAATCAAGCAATATCTTACTTGATCGCCAATGGAATGCTAAGGTTTCG

upper sequence: GLYMA09G39160.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 3
----gtaccgtatttgtgattaatcttcatacattaaaatct---ctgatga---tgcttgattgttttgataactgtgctttt---tgtttatcttttcagATTGGCCTATCTTCATGAGGGTCTTGAACCGAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTTATTGATCGCCAATGGAACTCCAAGGTTTCC
     |||| || |  ||||  |     |   ||  || | |   | ||  |   ||||||   | ||     | ||||||||    | ||| |   |  |||||||||||||||||||||||||||||||| || |||||||| |||||||| ||||| || ||||||||  ||||||||||||||||||| ||||| || 
gtacctaccctagtc-tgatatactgaaaactatccaacttttgcccgaaaacattgcttggcaggttgttctaatgtgctttgctatttttgttgctgtagATTGGCCTATCTTCATGAGGGTCTTGAACCAAAGGTTGTCCATCGAGATGTAAAATCTAGCAACATACTACTTGATCGCCAATGGAACTCTAAGGTGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctctgatgatgcttgattgttttgataactgtgctttttgtttatcttttcagATTGGCCTATCTTCATGAGGGTCTTGAACCGAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTTATTGATCGCCAATGGAACTCCAAGGTTTCC
                        tgataac  putative branch site (score: 2)
                                   ctttttgtttatcttt  putative PPT
                                    tttttgtttatctttt  TA-rich tract