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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtctttggcatcttgaatgcaaatctcgggatttggttaattgttttaaatagtttctaatgtaagatttctttactttttgcagAAAATTTCAGGGCTTTATGCACAGGGGAGAAGGGTAAAACCTCAAGCGGAAAGCCTTTACATTATAAGGGAACACCATTTCATCGTATAATATCTGGATT

Basic information

species Arabidopsis thaliana
transcript AT4G34960.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G34960.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G11370.1 (Glycine max), 3'ss of exon 4
gtatgtctttggcatcttgaatgcaaatctcgggatttggttaattgttttaaatagtttctaatgtaagatttctttactttttgcagAAAATTTCAGGGCTTTATGCACAGGGGAGAAGGGTAAAACCTCAAGCGGAAAGCCTTTACATTATAAGGGAACACCATTTCATCGTATAATATCTGGATT------------------------
                 |   || |  ||||   |||| ||| |||  |||||    |  | |  |     |   |  |||  ||   ||   || || |     |||   ||||||||| || || |    ||  || |      | ||||| || ||||||||||||||||| ||||||||||| ||                        
----------------gtagctgtag-tctcttcattttgtttattaatttaa----tccccatcg----gtccttgcactgatta-ggagtgttccatg-----atgtgtagGGGAGAAAGGAAAGAGTGAAAATGGCATAAAGCTTCATTACAAAGGAACACCATTTCATCGGATAATATCTGGTTTTGTGATTCAGGGTGGAGACATTGT

upper sequence: AT4G34960.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G03540.1 (Glycine max), 3'ss of exon 4
gtatgtctttggcatcttgaatgcaaatctcgggatttggttaattgttttaaatagtttctaatgtaagatttctttactttttgcagAAAATTTCAGGGCTTTATGCACAGGGGAGAAGGGTAAAACCTCAAGCGGAAAGCCTTTACATTATAAGGGAACACCATTTCATCGTATAATATCTGGATT------------------------
                                | |  ||  || |   || |  | |||| | |  |       | |   |  |||||   | |   || | |  | |   ||||||||| || || |    ||  || |      | ||||| || ||||||||||||||||| ||||||||||| ||                        
--------------------------------gtacctg--tagtctcttcatttcgtttattaatttgatccccatcggtccttgcactgattaggagtgttccacgtgtagGGGAGAAAGGCAAGAGTGAAAATGGCATAAAGCTTCATTACAAAGGAACACCATTTCATCGGATAATATCTGGTTTTGTGATTCAGGGTGGAGACATTGT

upper sequence: AT4G34960.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0038g02200.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtctttggcatcttgaatgcaaatctcgggatttggttaattgttttaaatagt--ttctaatgta------agatttctttactttt-tgcagAAAATTTCAGGGCTTTAT--GCACAGGGGAGAAGGGTAAAACCTCAAGCGGAAAGCCTTTACATTATAAGGGAACACCATTTCATCGTATAATATCTGGATT------------------------
|||  | |    |||  |       ||| ||     ||  || | |||||  ||   |  | ||| || |      ||||||  ||| |  | ||| |  |||  |   | | | |     ||||||||||||| |||    | || |||||     | ||||||||||| ||||||||||||||||||||||| |||||                        
gtacttttagaccattcttctcaacaatttcttatgtttcttgaatgtttagaaatctcatactattgaaggaggcagattttattattaatatgctggtaatgaccttgttatttcaatgcagGGGAGAAGGGCAAAGGTGCCAGTGGAAAAAAGCTTCATTATAAGGGGACACCATTTCATCGTATAATATCCGGATTCATGATCCAGGGTGGAGATACTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttggttaattgttttaaatagtttctaatgtaagatttctttactttttgcagAAAATTTCAGGGCTTTATGCACAGGGGAGAAGGGTAAAACCTCAAGCGGAAAGCCTTTACATTATAAGGGAACACCATTTCATCGTATAATATCTGGATT
                        ttctaat  putative branch site (score: 2)
                                     tttctttactttttgc  putative PPT
      ttaattgttttaaata  TA-rich tract