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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtggcatcagtgttaataagtttgtttatttacctaggatatcattgacgtatcttagttcttaaacatttctgattcatcttcctgtttttcttcagGCACTTATCAAATCATCAAACCGTCTACGAGATTCGTTACTTCCAAATGATGAACCAAAGTTAGCTATCCCCCTTTTGTTACTTATCGCGCAGCATCGTT

Basic information

species Arabidopsis thaliana
transcript AT1G24706.2
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G24706.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA05G34330.1 (Glycine max), 3'ss of exon 21
-tagtg----gcatcagtgttaataagtttgtttatttacctaggatatcattgacgtatcttagttcttaaacatttctgattcatcttcctgtttttcttcagGCACTTATCAAATCATCAAACCGTCTACGAGATTCGTTACTTCCAAATGATGAACCAAAGTTAGCTATCCCCCTTTTGTTACTTATCGCGCAGCATCGTT
 |||||       | | |  |||| | |  |    | ||||| |  ||  ||| |   || | |   |||     ||        || |     |  ||   |||||| | || || ||| | | | | || |||||| | |||||||||||||||||||| ||||| || |||||||| ||    ||||| || || ||| |||
ctagtgttgaattttaattctaattattgcggaattataccttgtttaagatttaaaaatgtga---cttggtggttgacatggtatttaataataattg--cagGCATTGATAAAGTCAACTAGCAGACTTCGAGATGCATTACTTCCAAATGATGAACCGAAGTTGGCGATCCCCCTGTTACAGCTTATTGCTCAACATTGTT

upper sequence: AT1G24706.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA08G05320.1 (Glycine max), 3'ss of exon 18
tagtggcatcagtgttaataagtttgtttatttacctaggatatcattgacgtatcttagttcttaaacattt--ctgattcatcttcctgtttttc---------ttcagGCACTTATCAAATCATCAAACCGTCTACGAGATTCGTTACTTCCAAATGATGAACCAAAGTTAGCTATCCCCCTTTTGTTACTTATCGCGCAGCATCGTT
          |||||| |    |   | || |||    ||| || |||  | |   |||    |||||| | |  ||   |  |   | || | ||          | |||||| | || || ||| | | | | || || ||| | ||||||||||| |||||||||||||| || |||||||| ||  | ||||| || || |||||||
--------ctagtgttgaattttaaatctaattattgtgga-attatt--ccttgtttaagatttaaacttgtgacttggtggttgacatggtatttaataataattgcagGCATTGATAAAGTCAACTAGCAGACTTCGTGATGCATTACTTCCAAAAGATGAACCAAAGTTGGCGATCCCCCTGTTACTGCTTATTGCTCAACATCGTT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgacgtatcttagttcttaaacatttctgattcatcttcctgtttttcttcagGCACTTATCAAATCATCAAACCGTCTACGAGATTCGTTACTTCCAAATGATGAACCAAAGTTAGCTATCCCCCTTTTGTTACTTATCGCGCAGCATCGTT
                          ttctgat  putative branch site (score: 3)
                         tttctgattcatcttc  CT-rich tract
                  ttaaacattt  TA-rich tract