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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtcccttgaaactctgtttctgtttttttacccgtcgttatgcatcaaaacttaaagaaagagctaatcctctgttttttttatgtatagATGATTGTGGAAGAGATGAACATTTTGACTACTGTCTTTCTTCGATTTGATAATCAGAAGATTGTATATCCAAACAGTCTTCTCGGAACAAAACCTATCG

Basic information

species Arabidopsis thaliana
transcript AT1G53470.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G53470.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0038g03030.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------gtttgtcccttgaaactctgtttctgtttttttacccgtcgttatgcatcaaaacttaaagaaagagctaatcctctgttttttttatgtatagATGATTGTGGAAGAGATGAACATTTTGACTACTGTCTTTCTTCGATTTGATAATCAGAAGATTGTATATCCAAACAGTCTTCTCGGAACAAAACCTATCG
                          ||||     |   |  ||| ||| ||| |   |||| || |   |   |    |   |    | |  |||||  ||  ||    | | ||  ||||| | ||||||||||||||||| |||||||||||||||||  ||   || ||   |||||| || |  ||||||||   ||| |  ||||  |      
gttgaggtacaaacagttgaaacttagttttgtgatcatatatctttttgtgtatccatacctgttgcattttttttccatccattctaggctctaattttc-attcaaatgagGTTCAGATGGTAGTGGAAGAGATGAACATCTTGACTACTGTCTTTCTAAGAGCCGACAACATGAAGATCGTGTTCCCAAACAGCACTCTTGCTACAAGGC------

upper sequence: AT1G53470.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0038g02980.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------gtttgtcccttgaaactctgtttctgtttttttacccgtcgt-tatgcatcaaaacttaaagaaagagctaatcctctgttttttttatgtatagATGATTGTGGAAGAGATGAACATTTTGACTACTGTCTTTCTTCGATTTGATAATCAGAAGATTGTATATCCAAACAGTCTTCTCGGAACAAAACCTATCG
                          ||||     |   |  ||| ||| ||| |   || | |  |  | |   |    |   |      |  ||||  |||  ||    | | ||  ||||||| ||||||||||||||||| |||||||||||||||||  |    || || |||||||| || |  ||||||||   ||| |  ||||  |      
gttcaggtacaaacagttgaaacttagtttcatgatcatatatctttttgtgtatccatatctgatgcattttttttttcatccattctgggctctaactctc-attcaaatgagGTTCAGATGATAGTGGAAGAGATGAACATCTTGACTACTGTCTTTCTAAGGGGCGACAACCAGAAGATCGTGTTCCCAAACAGCACTCTTGCTACAAGGC------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttatgcatcaaaacttaaagaaagagctaatcctctgttttttttatgtatagATGATTGTGGAAGAGATGAACATTTTGACTACTGTCTTTCTTCGATTTGATAATCAGAAGATTGTATATCCAAACAGTCTTCTCGGAACAAAACCTATCG
                          agctaat  putative branch site (score: 3)
                                tcctctgtttttttta  CT-rich tract
                                     tgttttttttatgtat  TA-rich tract