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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgagagtcctccctctatggcatactttacgttgtctgtgtctgtcatcgatagcatgttttctagtttataatgataaactttctcacttcttttgcagGGTTCAATTCCACTTTACGACTAGGGAATATTACTCATCATGAATATATTCAG

Basic information

species Physcomitrella patens
transcript PP1S13_132V6.1
intron # 38
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S13_132V6.1 (Physcomitrella patens), 3'ss of exon 38
lower sequence: GLYMA10G44150.1 (Glycine max), 3'ss of exon 39
---tgaga-gtcctccctctatggcatactttacgttgtctgtgtctgtcatcgatagcatgttttctagtttataatgataaactttctcacttcttttgcagGGTTCAATTCCACTTTACGACTAGGGAATATTACTCATCATGAATATATTCAG
   | ||| |  ||   | ||| || |  |  |  |||| | | ||| |   |   |   |    ||| |    |  |  |  |  ||||   ||| || ||||| |||||||| || ||||| | ||| |||||||| ||||||||||||||||||
ttctaagaagctcttattgtattgc-tgttcaaaattgtgttt-tctatttgcctcatttttccctct-gccactctttttttatattcttg-ttcattcgcagGATTCAATTCAACCTTACGTCAAGGAAATATTACACATCATGAATATATTCAG

upper sequence: PP1S13_132V6.1 (Physcomitrella patens), 3'ss of exon 38
lower sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 39
---tgaga-gtcctccctctatggcatactttacgttgtctgtgtctgtcatcgatagcatgttttctagtttataatgataaactttctcacttcttttgcagGGTTCAATTCCACTTTACGACTAGGGAATATTACTCATCATGAATATATTCAG-----------------------------------------------
   | ||| |  ||   | ||| || |  |  |  |||| | | ||| |   |   |   |    ||| |    |  |  |  |  ||||   ||| || ||||| |||||||| || ||||| | ||| |||||||| ||||||||||||||||||                                               
ttctaagaagctcttattgtattgc-tgttcaaaattgtgttt-tctatttgcctcatttttccctct-gccactctttttttatattcttg-ttcattcgcagGATTCAATTCAACCTTACGTCAAGGAAATATTACACATCATGAATATATTCAGGTGAGACTTGTTGTTTATTGATCCCTCTACAACAAATCGTTTTCTAA

upper sequence: PP1S13_132V6.1 (Physcomitrella patens), 3'ss of exon 38
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 41
---tgagagtcctccctctatggcatactttacgttgtctgtgtctgtca--tcgatagcatgttttctagtttataatgataaactttctcacttcttttgcagGGTTCAATTCCACTTTACGACTAGGGAATATTACTCATCATGAATATATTCAG
       ||  ||   | ||| || |  || |  |||| | |   | |    ||| |      | ||||  | | |  |    |   || | | |||     |||| |||||||| || ||||| | ||| |||||||| ||||||||||||||||||
tggcttaagctcttattttattgc-tgtttgaaattgtgttttctttttgcctcgcttttccctcttctgctcttttttttatattcttgttaattc----acagGATTCAATTCAACCTTACGTCAAGGAAATATTACACATCATGAATATATTCAG

upper sequence: PP1S13_132V6.1 (Physcomitrella patens), 3'ss of exon 38
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 36
tgagagtcctccctctatg-gcatactttacgttgtctgtgtctgtcatcgatagcatgttttctagtttataatgataaactttctcacttcttttgcagGGTTCAATTCCACTTTACGACTAGGGAATATTACTCATCATGAATATATTCAG
| |    | |   | |||| |  |   |     |     | |   |   |  ||   |   ||           |  | || |||   | ||    |||||| |||||||| || || || | ||||||| |||||||||||||||||||||||
taatgtccttgtttatatgtgtgtgtgtgtgtgtacacttatgcttggacagtaatttaaatttcttcccgaggtatttaattttgg-agttgaaatgcagGATTCAATTCAACATTGCGCCAAGGGAATGTTACTCATCATGAATATATTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catcgatagcatgttttctagtttataatgataaactttctcacttcttttgcagGGTTCAATTCCACTTTACGACTAGGGAATATTACTCATCATGAATATATTCAG
                                     ttctcac  putative branch site (score: 2)
                                   ctttctcacttctttt  CT-rich tract
             ttttctagtttataat  TA-rich tract