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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagaatatataacccttttcaaaaataaacatatgagatatcaattgataatttgcatgttatttttgtttaacacgtgaattgatttttattttttgtttgcatatggtttggattggattttgagaatggtgcagGAAGTAGAAGAAGTGGGAGGAAAAGAAGAGTTGGAGAAAGAGATAAGCCGGAGAATCAAATTATACAACAAGGGTTCTTCTACCTCTTAATTGCTACAAA

Basic information

species Arabidopsis thaliana
transcript AT5G52570.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G52570.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G37560.2 (Glycine max), 3'ss of exon 5
gcaagaatatataacccttttcaaaaataaacatatgagatatcaattgataatttgcatgttatt-tttgtttaacacgtgaattgatttttattttttgtttgcatatggtttggattggattttgagaatggtgcagGAAGTAGAAGAAGTGGGAGGAAAAGAAGAGTTGGAGAAAGAGATAAGCCGGAGAATCAAATTATACAACAAGGGTTCTTCTACCTCTTAATTGCTACAAA--
                                     | || | | ||  |  |||     ||  | |||  || ||  | |  |||  | |  || ||    |||  ||    |  ||  |||    |  ||||| |||||||| ||||||||||||||   ||||||| | ||||||||||||||  |||||||||  |         | |    | | |      | ||| |  |||  
-------------------------------------aaat-ttatttcttttttttttcattggtatttacttcactagaggtttgcatatatttcttccagtgctaataccctttatgcgatc--aattatggtacagGAAGTTGAAGAAGTGGGAGGGCTAGAAGAGCTAGAGAAAGAGATAAGTAGGAGAATCAGGTCCGGT--TCATGACCATGCCAAGCTAGAGTTGTTTGAAAGA

upper sequence: AT5G52570.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 6
gcaagaatatataacccttttcaaaaataaacatatgagatatcaattgataatttgcatgttatttttgtttaacacgtgaattgatttttattttttgtttgcatatggtttggattggattttgagaatggtgcagGAAGTAGAAGAAGTGGGAGGAAAAGAAGAGTTGGAGAAAGAGATAAGCCGGAGAATCAAATTATACAACAAGGGTTCTTCTACCTCTTAATTGCTACAAA----
                                                  |||          |||||  |||  | |   |||| ||||| |       |||| |   || ||| ||   || | | |  ||||||||||||| ||||| |||||||| || || ||||||||||||||||| |  || |||  || ||||| ||||      ||    |    |    || |  | |    
-------------------------------------------------gtaagcccatcaccattttattttttcccc--aattaattttcaaa----atttgaagggggattgaatactatgtggtg--tggtgcagGAAGTGGAAGAGGTGGGAGGCAAGGATGAGTTGGAGAAAGAGATCAATCGCAGAGCCAGATTATCCAACGG----TCCAAGATGAATAGGATGTTTTAGATACG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttttattttttgtttgcatatggtttggattggattttgagaatggtgcagGAAGTAGAAGAAGTGGGAGGAAAAGAAGAGTTGGAGAAAGAGATAAGCCGGAGAATCAAATTATACAACAAGGGTTCTTCTACCTCTTAATTGCTACAAA
 aattgat  putative branch site (score: 4)
     tttattttttgttt  TA-rich tract