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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcaaaaaattcatcaggaatcctgaactacgtatatccattcatgctttatgttctagttcacgtaatttcagaattccatttatatatatatatatacgtattggtgacatgctgatttttccacctctgttttgcactcctcaaccagGAGGATGAAAAGGAGCGGCTGATTCAGGAGACAGGTTTGGAATTGAAGCAAGTGAATAATTGGTTCATAAACCAACGCAAGCGGAACTGGCACAGCAATC

Basic information

species Physcomitrella patens
transcript PP1S154_83V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S154_83V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: LOC_Os06g43860.2 (Oryza sativa), 3'ss of exon 4
gtatcaaaaaattcatcaggaatcctgaactacgtatatccattcatgctttatgttctagttcacgtaatttcagaattccatttatatatatatatatacgtattggtgacatgctgatttttccacctctgttttgcactcctcaaccagGAGGATGAAAAGGAGCGGCTGATTCAGGAGACAGGTTTGGAATTGAAGCAAGTGAATAATTGGTTCATAAACCAACGCAAGCGGAACTGGCACAGCAATC
                                                     | |   || ||||   ||  ||  ||      |   |  || |   |   ||    |||    |   ||| |  |||| | |                ||||||| || ||||  ||  || | ||||| ||||| ||| || | || ||  | ||||||||||| || |||||||| || |||||||||||||||||||
----------------------------------------------------gtatgtcagctcaca-gataccattatcaggccttcctgcatttccttttctaccactgatgctcatgtttcttaacctttat----------------agGAGGAGGACAAGGCTCGCTTGGTGCAGGAAACAGGGTTGCAACTAAAACAGATCAATAATTGGTTTATCAACCAACGTAAACGGAACTGGCACAGCAATC

upper sequence: PP1S154_83V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: LOC_Os02g08544.2 (Oryza sativa), 3'ss of exon 4
gtatcaaaaaattcatcaggaatcctgaactacgtatatccattcatgctttatgttctagttcacgtaatttcagaattccatttatatatatatatatacgtattggtgacatgctgatttttccacctctgttttgcactcctcaaccagGAGGATGAAAAGGAGCGGCTGATTCAGGAGACAGGTTTGGAATTGAAGCAAGTGAATAATTGGTTCATAAACCAACGCAAGCGGAACTGGCACAGCAATC
                                                                ||||     ||  |||||||||   ||  | |||     |  |    |  ||  | |  |  |       | || |    |  |  ||||| || || ||||  || ||| | ||||| || || ||  || |||||||| | || ||||||||||| ||||||||||| || |||||||| ||||| |
--------------------------------------------------------------gtacgtggcaccaacattccatttccgtaactttattattatggtatcaat-tgtgggtcatgacgagcaattctttctacacatattcagGAAGACGACAAGGCCCGCCTGGTGCAGGAAACGGGGTTACAACTGAAGCAAATCAACAATTGGTTCATTAACCAACGCAAACGAAACTGGCATAGCAACC

upper sequence: PP1S154_83V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G433591_T02 (Zea mays), 3'ss of exon 5
gtatcaaaaaattcatcaggaatcctgaactacgtatatccattcatgctttatgttctagttcacgtaatttcagaattccatttatatatatatatatacgtattggtgacatgctgatttttccacctctgttttgcactcctcaaccagGAGGATGAAAAGGAGCGGCTGATTCAGGAGACAGGTTTGGAATTGAAGCAAGTGAATAATTGGTTCATAAACCAACGCAAGCGGAACTGGCACAGCAATC
                                                          ||  | ||      |||  | |  |||      |     | | | |||  |   |  ||| |||  |   |  ||  |||||  | |||  |||||| || || ||||   | ||| | ||||| || || ||| |  | |||||| | || || |||||||| ||||||||||||||||||||||||||||| |
---------------------------------------------------------gtacgtgacaccgcgtca--acttaattccctcgttagcttctgc-tatcaggttcg-gctcattgatgagcaact-ctttgc-ttactcgtccagGAAGACGACAAGGCCAGACTGGTGCAGGAAACGGGGTTGCAGCTAAAGCAAATCAACAACTGGTTCATTAACCAACGCAAGCGGAACTGGCACAGCAACC

upper sequence: PP1S154_83V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G370332_T01 (Zea mays), 3'ss of exon 4
gtatcaaaaaattcatcaggaatcctgaactacgtatatccattcatgctttatgttctagttcacgtaatttcagaattccatttatatatatatatatacgtattggtgacatgctgatttttccacctctgttttgcactcctcaaccagGAGGATGAAAAGGAGCGGCTGATTCAGGAGACAGGTTTGGAATTGAAGCAAGTGAATAATTGGTTCATAAACCAACGCAAGCGGAACTGGCACAGCAATC
                                                     | |   |    |||       | |||||| |    |  | |   |||  |  | |||    |||||||    ||||      |||||  |  ||| |||||| || || ||||  || ||| | ||||| || || ||| |  | |||||  | || || |||||||| ||||||||||| ||||||||||||||||| |
----------------------------------------------------gtatgtgacactacggcgacatataattccctcgtcaacttttgctatcagcttgggttcattgctgat----ccactc----tttgc-ttattcatccagGAAGACGACAAGGCACGACTGGTGCAGGAAACGGGATTGCAGCTAAAGCAGATTAACAACTGGTTCATCAACCAACGCAAACGGAACTGGCACAGCAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacgtattggtgacatgctgatttttccacctctgttttgcactcctcaaccagGAGGATGAAAAGGAGCGGCTGATTCAGGAGACAGGTTTGGAATTGAAGCAAGTGAATAATTGGTTCATAAACCAACGCAAGCGGAACTGGCACAGCAATC
                tgctgat  putative branch site (score: 3)
                      tttttccacctctgtt  CT-rich tract
                   tgattttt  TA-rich tract