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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacattccaccctagtattacttactactgtttcttcagtggattctgagggtaatgggagatagatgaaatagtttctgacatgagaatattggtttgttttggtgtttggatgaaacagATGTTTTACAAGCAAGCGAAGAAAACAAACTCATGTTGTACACTTCTCTAAGCTGTAATGCAACTCTTGAATGTCCCTCTATAGAATAGTCTACCCTACT

Basic information

species Arabidopsis thaliana
transcript AT5G58180.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G58180.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 5
gtaacattccaccctagtattacttactactgtttcttcagtggattctgagggtaatgggagatagatgaaatagtttctgacatgagaatattggtttgttttggtgtttggatgaaacagATGTTTTACAAGCAAGCGAAGAAAACAAACTCATGTTGTACACTTCTCTAAGCTGTAATGCAACTCTTGAATGTCCCTCTATAGAATAGTCTACCCTACT---
                 ||  | |    |   |   || ||     ||| |   |||  |  |          |  || || | |  | ||     | |     ||||| |||    ||||||||||| |||||||| ||||||||||| ||    || ||||   |  | |||||| | |   ||  |     ||  |  || ||         ||   ||    
--------------agatagcagtagtaaggttccttttagaaatctctaaacttaagcgtgggcctgaatgttgtttgctaataccaaaa-----gctgacggtggtggttg----aaacagATGTTCTACAAGCAGGCGAAGAAAACCAATCAGTGCTGTAGTATATTGTAAGCTTTCA---AAAGCAAAGGTGCTCTACTGTAATGGCCCTCACATCACGTGT

upper sequence: AT5G58180.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ35352 (Selaginella moellendorffii), 3'ss of exon 5
gtaacattccaccctagtattacttactactgtttcttcagtggattctgagggtaatgggagatagatgaaatagtttctgacatgagaatattggtttgttttggtgtttggatgaaacagATGTTTTACAAGCAAGCGAAGAAAACAAACTCATGTTGTACACTTCTCTAAGCTGTAATGCAACTCTTGAATGTCCCTCTATAGAATAGTCTACCCTACT--
                                                                           || |   | ||     | ||   | || |      |   |     |||||||||||||||||||| |||||||| |||   || || |   |  | | ||  |  | || | | |   |   | | ||||| | ||   |    |  |  
---------------------------------------------------------------------------gtattcaaaatctctcttttcaatcgtatcaa-actcccagcttgcagATGTTTTACAAGCAAGCCAAGAAAACCAACCAGTGCTGCAGCATCTTGTGAGA-GCGACGCGATTTTGATAAAACTCGCTATACA-TACCGTGTGTTGATGT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaatagtttctgacatgagaatattggtttgttttggtgtttggatgaaacagATGTTTTACAAGCAAGCGAAGAAAACAAACTCATGTTGTACACTTCTCTAAGCTGTAATGCAACTCTTGAATGTCCCTCTATAGAATAGTCTACCCTACT
         ttctgac  putative branch site (score: 2)
                   agaatatt  TA-rich tract