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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcccatttgaacatttttatgaatacatttagtgagtccgtatcaatatttttatgaattctgatctaaataattgttatgattatgatttaacacaaaagtatttggatgcggaatttcagGCACTCAAGAGGAAGCTGCAGAAGCTTATGATATAGCAGCGATCAAATTCCGCGGTCTAAATGCAGTCACCAATTTCGACATCAGTCGATATGATGTCAA

Basic information

species Arabidopsis thaliana
transcript AT5G57390.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os04g55970.1 (Oryza sativa), 3'ss of exon 8
gtgagtcccatttgaacatttttatgaatacatttagtgagtccgtatcaatatttttatgaattctgatctaaataattgttatgattatgatttaacacaaaagtatttggatgcggaatttcagGCACTCAAGAGGAAGCTGCAGAAGCTTATGATATAGCAGCGATCAAATTCCGCGGTCTAAATGCAGTCACCAATTTCGACATCAGTCGATATGATGTCAA
               |  ||  |   | ||| |  |   | |    |  ||    |       ||||  |||  |||  |||  || | |  |  | |       ||   | | | |    ||||||||||| | ||||||||||||||||||||||| || || |||||||| ||||| || || ||||| |||||||| || || ||| | || ||| | ||  |
---------------attttacttcaagtacctaaataaaattgacaataacgcatc-----gttct--tctgcatatgtgtggtgttcaacagctgatt-----gttgcttgcttccttctttcagGCACTGAGGAGGAAGCTGCAGAAGCTTATGACATCGCGGCGATCAAGTTCCGTGGCCTGAATGCTGTCACCAACTTTGAGATCGGCCGGTATAACGTGGA

upper sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os11g19060.1 (Oryza sativa), 3'ss of exon 8
gtgagtcccatttgaacatttttatgaatacatttagtgagtc-cgtatcaatatttttatgaattctga--tctaaataattgttatgattatgatttaacacaaaagtatttggatgcggaatttcagGCACTCAAGAGGAAGCTGCAGAAGCTTATGATATAGCAGCGATCAAATTCCGCGGTCTAAATGCAGTCACCAATTTCGACATCAGTCGATATGATGTCAA
                           ||  ||  |||  ||| |  |||| |  |       |  || |  | | | |||   | ||  ||   |  | | ||  |  |   |  |       || ||||||| ||||||||||||||||| || |||||||| || || ||||||||||| ||||| ||||| || || || || ||||| || || || ||||||||
---------------------------atggatggagtatgtctcacatcactgatcactcagacccttaattatgattaaaaatcat--ttcaaagctgatactgagattaattaaca-aaccttgcagGCACCCAAGAGGAAGCTGCAGAGGCATATGATATCGCTGCAATCAAATTCCGTGGTCTCAATGCTGTGACAAACTTTGACATGAGCCGGTACGATGTCAA

upper sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 8
gtgagtcccatttgaacatttttatgaatacatttagtgagtccgtat-caatatttttatgaattctgatctaaataattgttatgattatgatttaacacaaaagtatttggatgcggaatttca-gGCACTCAAGAGGAAGCTGCAGAAGCTTATGATATAGCAGCGATCAAATTCCGCGGTCTAAATGCAGTCACCAATTTCGACATCAGTCGATATGATGTCAA
                                    ||||||   | | | | |  || ||||| |   || |   | || | | || ||  |  |      |  | | | | |  |  |  ||||| ||||||||||| ||||| || ||||| ||||| || || || ||||||||| | || ||||||||||| ||||| |||||||| || ||||| ||||||||
------------------------------------gtgagtttttgttccaaacattcatgaaattctatttttcttat-gatgtgttttcgtatatgtgaatgaatgtgttgtcgatgtttttcaagGCACTCAAGAAGAAGCAGCCGAAGCCTATGACATTGCTGCAATCAAATTCAGAGGCCTAAATGCAGTAACCAACTTCGACATGAGCCGATACGATGTCAA

upper sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: EFJ17692 (Selaginella moellendorffii), 3'ss of exon 5
gtgagtcccatttgaacatttttatgaatacatttagtgagtccgtatcaatatttttatgaattctgatctaaataattgttatgattatgatttaacacaaaagtatttggatgcggaatttcagGCACTCAAGAGGAAGCTGCAGAAGCTTATGATATAGCAGCGATCAAATTCCGCGGTCTAAATGCAGTCACCAATTTCGACATCAGTCGATATGATGTCAA
                                                           | | || |      || |  | | | | |  | | ||    |     | ||| ||||         ||| ||| |||| |||||||| |||||||| || || ||||| |||||||||||||||  ||  || || || || |||||||| ||||  || ||  | | 
----------------------------------------------------------gtaagttttcgatcgaa-agctttcaagttcgtaaattttttcc---ttttttcgatgaa-------agGTACTGAAGAAGAAGCTGCCGAAGCTTACGACATCGCAGCCATCAAATTCCGCGGTGCAAGCGCGGTGACAAACTTCGACATGAGTCACTACGACTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaataattgttatgattatgatttaacacaaaagtatttggatgcggaatttcagGCACTCAAGAGGAAGCTGCAGAAGCTTATGATATAGCAGCGATCAAATTCCGCGGTCTAAATGCAGTCACCAATTTCGACATCAGTCGATATGATGTCAA
                    atttaac  putative branch site (score: 3)
     attgttatgattatga  TA-rich tract