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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgttttcttcggattaacatttgagtatgtctccaaagatcagacttttctcactcactgtctcgtttttgtttagGTTCAAACAACCTTTACCCTGGTGACCTAATCCCTTTTACACGGAAACCACTTTTCTTGATCATTGATAGCGACACTAGCCGTGCATTCAAG

Basic information

species Arabidopsis thaliana
transcript AT4G40050.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G40050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv07s0191g00140.t01 (Vitis vinifera), 3'ss of exon 5
------------------------------------------------------------------------------------gtaagtcgttttcttcg--------gattaacatttgagtatgtctccaaagatcagacttttc------tcactcactgtctcgtttttgtttagGTTCAAACAA---CCTTTACCCTGGTGACCTAATCCCTTTTACACGGAAACCACTTTTCTTGATCATTGATAGCGACACTAGCCGTGCATTCAAG
                                                                                     || || ||| ||   |        ||| || |||| || |  ||       ||||  ||  ||      ||  | ||| | ||  ||||  | ||||||||| ||   |||||||||||||||  |||| ||||||||  | | ||||||||||||||| |||||||| ||||  |||| ||||||||||
gtaggtgcctatgttgaatttatgcgatgaatagtttttactgggaggggtttgtgcatttaatctaaaagaataattgttcttctaggttgttgtccatgttatagatgataaaaatttaaggagttcctgttttatcattctactcactgtttcctttactctttccctttt--tcagGTTCAAATAATAACCTTTACCCTGGTGATATAATTCCTTTTACCAGAAGACCACTTTTCTTGATTATTGATAGTGACAACAGCCATGCATTCAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagtatgtctccaaagatcagacttttctcactcactgtctcgtttttgtttagGTTCAAACAACCTTTACCCTGGTGACCTAATCCCTTTTACACGGAAACCACTTTTCTTGATCATTGATAGCGACACTAGCCGTGCATTCAAG
                              cactcac  putative branch site (score: 2)
                                       tctcgtttttgttt  putative PPT
                                            tttttgttta  TA-rich tract