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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagctatgagtcattaataatttgtttctagcttcaagtatcatcagtactaggtccccacagttttaacatcctcaatatctgttcagATCCTAGAAGATTCAGACTCACTCATGAGACATCATTTGTGAGGGATCACAACAGTATCTGGACTAAAACACCAGTTTCCTTCTATTTT

Basic information

species Glycine max
transcript GLYMA06G01800.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01800.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G42560.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaaagctatgagtcattaataatttgtttctagcttcaagtatcatcagtactaggtccccacagttttaacatcctcaatatct-----------gttcagATCCTAGAAGATTCAGACTCACTCATGAGACATCATTTGTGAGGGATCACAACAGTATCTGGACTAAAACACCAGTTTCCTTCTATTTT
||| ||   |||    || ||| ||||  |   | |  || | | | | || |||| |   || | |||||   ||||   ||| |            | |||||||   |||||| |||||||| |||||||||||||||||  | || ||   || |   ||| |||  |    | | | ||||||  ||
gtagag---tgaac--tttatattttgcatggtgatcaaaatttta-ctgtcctagctaatcaaaattttactgtccttgctatttttatttttttaatacagATCCATCAAGATTTAGACTCACACATGAGACATCATTTGTCCGAGAACATGTCAATTCTTGGGCTAGCAATAAATTCTTCTTCTACGTT

upper sequence: GLYMA06G01800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0122g00910.t01 (Vitis vinifera), 3'ss of exon 5
---------------gtaaagctatgag--tcattaataatttgtttctagcttcaagtatcatcag--tactaggtccccacagttttaacatcctcaatatct-----gttcagATCCTAGAAGATTCAGACTCACTCATGAGACATCATTTGTGAGGGATCACAACAGTATCTGGACTAAAACACCAGTTTCCTTCTATTTT-
                |    | ||||   |      ||    |  |  |  ||| |||    |     |  ||  |   |  |  | ||| ||| || || |        | ||||| ||  ||||||||| || ||||||||||| || |||||||||||||||| |||| |||||||||||||||| ||| |  | | || | 
gtttctcattgttcatttttaccatgaagtttgcagttacccagcatggaatttccagtgctgttgaattgttacatttgctta-ctgtaaaatcttcgatgtgcttatgatgcagATGCTGCAAGATTCAGGCTTACTCATGAGACCTCTTTTGTGAGGGATCACAGCAGTTTCTGGACTAAAACACC-GTTCCTGTTTGTTATT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagtatcatcagtactaggtccccacagttttaacatcctcaatatctgttcagATCCTAGAAGATTCAGACTCACTCATGAGACATCATTTGTGAGGGATCACAACAGTATCTGGACTAAAACACCAGTTTCCTTCTATTTT
                             ttttaac  putative branch site (score: 2)
                                              tctgttc  putative PPT
                             ttttaacat  TA-rich tract