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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcacgattatgtaatcatgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaatacttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG

Basic information

species Physcomitrella patens
transcript PP1S53_93V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G062524_T02 (Zea mays), 3'ss of exon 2
tttcacgattatgtaat-catgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaatac--ttgcaattcgttaagtaccatgt--ctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG
    ||||||  ||  | | |||    ||    |  | | | |||          |     |  | ||||  || || ||| | | ||   |      |||  ||||  |  || || | || |||||||| || ||||||||| | ||||||||||||| ||| |||||||| |||||||| || ||||||||||||
--ctacgattcggttgtgcttgtcaaattagcattattaggcaatggc---gctccttatctcattataccatttcacttcttgatgtcatacacaattctgtagATCCTAAGGAAACTCAAACATGAGAACATAATTGAAATGATCGATGCCTTTGAAACCCCTCAGGAGTTTTGTGTTGTCACAGAGTTTGCTCAG

upper sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA20G16860.1 (Glycine max), 3'ss of exon 2
tttcacgattatgtaatcatgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaat-acttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG
 || |  ||| |     |   |  || | || | ||||   | |||| |       |  ||| |  | ||| |  |    | || | |      | | ||||| ||  |  | || |||||||  ||||| ||| ||||||||||| ||||||||||||| || || || |||||||| || || ||||| || 
atttattattgttgctgctaattattataat-tattaatttattaattacttataagtgtttctgctgactagtgacatttgaaattcataaattttgcagATCTTAAGAAAGTTGAAGCATGGAAATATTATTCAAATGCTTGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA

upper sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA10G22860.1 (Glycine max), 3'ss of exon 2
tttcacgattat-gtaatca--tgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaatacttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG
||| |  ||| | ||    |  | |  |  |||  | || |  || || | | |||   |  | ||    ||| |  |   || |  | |      | | ||||| || ||  | ||||||||||  ||||| ||| ||||||| ||| ||||||||||||| || || || |||||||| || || ||||| || 
tttaattattgttgttgctaattattataattaattatttattaattacttataagt--gtttctgctg-actggtgacatgtgacattcataaattttgcagATCTTACGAAAGTTAAAGCATGGAAATATTATTCAAATGCTCGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA

upper sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT1G50240.2 (Arabidopsis thaliana), 3'ss of exon 2
tttcacgattatgtaatcatgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaatacttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG
 ||  | | | |  | || |  | |     |    | ||    |||||  ||       ||| |  || |||     | |||  |    | |  ||| ||||||||||| |  | |||||||||||||||||||||||||| ||  ||||||||| | | |  ||||||||||| || ||||||||||| || 
gttagcaagttt-cagtccttaattgcacttaccatcaactt-taatcccaa--tcaattttatggtatttgaccaacattatttcttttatgcctc-agATATTGCGGAAGCTCAAGCATGAGAATATCATTGAAATGCTCGACTCCTTTGAAAACGCACGAGAGTTCTGTGTCGTCACTGAGTTTGCCCAA

upper sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ37043 (Selaginella moellendorffii), 3'ss of exon 2
tttcacgattatgtaatcatgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaatacttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG
                                                  |   || | |  |  | | ||    ||   |||| |  || |  || ||||| ||||||||| ||||||| ||||| || || |||||||| ||||| ||||||||||| |||||||| ||||| ||||| || ||||| |||
-------------------------------------------------gagtgcgtgttccgagagatttcttcttttctaagaag-attttacttCAGATTTTGCGGCAACTAAAGCACGAGAACATTATAGAAATGCTGGATGCATTTGAAAGCCCACAGGAGTTTTGTGTCGTGACAGAATTTGCACAG

upper sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ33693 (Selaginella moellendorffii), 3'ss of exon 2
tttcacgattatgtaatcatgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaatacttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG------
                                              |  |  |   |  ||   |    || |   |  |  |  |  || |  || ||||| ||||||||| ||||||| ||||| || || |||||||| ||||| ||||||||||| |||||||| ||||| ||||| || ||||| |||      
---------------------------------------------gtagagtgcgagtgttccgagagatttcttcttttctaagaagattttacttcagATTTTGCGGCAACTAAAGCACGAGAACATTATAGAAATGCTGGATGCATTTGAAAGCCCACAGGAGTTTTGTGTCGTGACAGAATTTGCACAGGCAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcaaaagacgggatttgtaatacttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG
                                            tgtctctcc  CT-rich tract
             atttgtaata  TA-rich tract