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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgagttttcttgtcaaatgaaatttgattctccatgaatgtgaattgaagatgaacttctgctttctcgcattcccttcaattctggttgattttatgtattagGGGCTTTTCTTGTAAATACTGGAAGCTGCCAGCTGTTGGATGATTGTGCTGTGAAACAACTTCTAATTGATGGCACTATAGCTGGCTGCGCCCTTGACGG

Basic information

species Arabidopsis thaliana
transcript AT1G01510.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G01510.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os10g38900.1 (Oryza sativa), 3'ss of exon 2
--------------------------gtatgagttttcttgtcaaatgaaatttgattctccatgaatgtgaattgaagatgaacttctgctttctc-gcattcccttcaattctggttgattttatgtatt--agGGGCTTTTCTTGTAAATACTGGAAGCTGCCAGCTGTTGGATGATTGTGCTGTGAAACAACTTCTAATTGATGGCACTATAGCTGGCTGCGCCCTTGACGG
                           |    ||||||   |    |    | | |   | | ||  |||    ||||  ||    |||| |||||| |      ||  |   |    || ||||  |  ||  ||| |||||  | || ||||| || ||||| || ||| | ||||| |||||  | ||||||||  |||||||||||||||||||||| |||||  | || ||
gtaatgtagatcctttccagtttccttttcatgttttccctttcttttcggtattaccatgcttgc-tgtagtatgaatctgtttatctgttttctctgtgcatgctatatcacattctggttttgagccttgcagGAGCTTTCATAGTCAATACCGGTAGCTGTCAACTGATAGATGACTGTGCACTCAAACAACTCTTAATTGATGGCACTATAGCTGGGTGCGCATTGGATGG

upper sequence: AT1G01510.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0046g02250.t01 (Vitis vinifera), 3'ss of exon 2
gtatgagttttcttgtcaaatgaaatttgattctccatgaatgtgaattgaagatgaacttctgctttctcgcattcccttcaatt-ctggttgattttatgtat-tagGGGCTTTTCTTGTAAATACTGGAAGCTGCCAGCTGTTGGATGATTGTGCTGTGAAACAACTTCTAATTGATGGCACTATAGCTGGCTGCGCCCTTGACGG
      || || || |    ||| || | | | || || ||  |   || |     || | |  ||  | |  |||  ||| ||    |  |   |||  | | |  |||||| |||||||| ||||| || ||| | |||||| |||||||||||||| |||| || ||  | ||||| ||||| || |||||||| || || || ||
------gtatttttattt--tgacatat-actttctataaactt---tttac----aagtccccctcccccctatttgctttaacagttaatcagtttcttctgtgcagGGGCATTTCTTGTGAATACGGGGAGCAGTCAGCTGCTGGATGATTGTGCTCTGAAGCAGCTGTTGATTGACGGCACCATTGCTGGCTGTGCTCTGGATGG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgaacttctgctttctcgcattcccttcaattctggttgattttatgtattagGGGCTTTTCTTGTAAATACTGGAAGCTGCCAGCTGTTGGATGATTGTGCTGTGAAACAACTTCTAATTGATGGCACTATAGCTGGCTGCGCCCTTGACGG
                                    ggttgat  putative branch site (score: 5)
                                      ttgattttatgtatta  TA-rich tract