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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtttagtggaactttaactcagcattttactgaatgttaatatatgtctgtcatttgctttgccttgagcacataataagatcaattggtcggacgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT

Basic information

species Physcomitrella patens
transcript PP1S64_201V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S64_201V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: LOC_Os04g36050.1 (Oryza sativa), 3'ss of exon 8
-----tgtttagtggaactttaactcagcat-tttactgaatgttaatatatgtctgtcatttgctttgccttgagcacataataagatcaattggtcgg-acgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT
     |   | |   |  |  |  | | ||| | ||  | |     |  ||| |    ||   |     || |   ||  | || | ||   |  | |    |  |||||||||||| ||||| ||||||||||||||||||||  ||||||||   || || ||| | |||||||| |||||| ||||  | ||  | ||| || |
gtacgtacattgcatagttacatattaccatgtatatggtaaccataagtattttatccaaaagtaactccatttacatttgatgatattcttgtgccattgcttagATATTCAGTTCTGGAATAAGAACAAGTCCATGGAAGGTCTATCAGCAAAATCCGTGGTTCTGAACTTTGTATGCCAGCTGATTATTTTCCTCTACCTGCT

upper sequence: PP1S64_201V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G437119_T02 (Zea mays), 3'ss of exon 8
---tgtttagtgga-actttaactcagcattttactgaatgttaatatatgtctgtcatttgctttgccttga-gcacataataagatcaattggtcggacgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT
   |||  | |  | | |||     | |||   | || ||  ||| || |||    |||          ||   ||| | ||  |  | |  |  | |    ||||||||||||| ||||||||||||||||||||||||||  |||| |||   ||||| ||| | || ||||| || ||  | || || ||  ||||| |  |
gtatgtacaatatatagttttttctaacat---aatgtatagtaagatgtgttatgcatcaataacaagttattgcaaacaactatcttatatctttgttttcagATATTCAGTTCTGGAACAAGAACAAGTCCATGGAAGGTCTATCGGCAAAATCTGTGGTTCTGAATTTTGTGTGTCAACTAATTGTTTTCCTGTACCTTCT

upper sequence: PP1S64_201V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G016894_T01 (Zea mays), 3'ss of exon 7
tgtttagtggaactttaactcagcattttactgaatgttaatatatgtctgtcatttgctttgccttgagcacataataagatcaat--------tggtcggacgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT
        | | ||  |||  |   ||||    |||   ||| |||   |   ||  | | ||| |  ||   |||  || ||| ||        |  |||    ||||||| ||||| ||||||||||||||||||||||||||  |||| |||   ||||| ||| | || ||||| || ||  |  | || ||  ||||| |  |
--------gtatctacaacatatagttttttctaatag-aatgtatag-taagatgcgttatgcatcaagttaatacaaacatctatcttatatatcttcgttttcagATATCCAGTTCTGGAACAAGAACAAGTCCATGGAAGGTCTATCGGCAAAATCTGTGGTTCTGAATTTTGTGTGTCAACTAGTTGTTTTCCTGTACCTTCT

upper sequence: PP1S64_201V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: AT5G08500.1 (Arabidopsis thaliana), 3'ss of exon 8
tgtttagtggaactttaactcagcattttactgaatgttaatatatgtctgtcatttgctttgccttgagcacataataagatcaattggtcggacgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT
      ||  |    | |   | ||| |   |   |  ||| ||   |||   |  |   |  | ||    || |       | | ||   |    |||||||| |||||||||||||||||||| || ||||||||| | || ||   |||||||||  | |||||| | || ||||| ||| | ||  | ||| || |
------gtaaagacctgaaagaacatctactt---tcgtaaaatgcctcttgaaactagct--ctttagttacctg------ttacttttcc---tgcagATATCCAGTTTTGGAACAAGAACAAATCTATGGAAGGACTGTCTGCGAAGTCTGTCGTACTAAACTTTATCTGTCAGTTTATCATCTTCCTCTACCTGCT

upper sequence: PP1S64_201V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: Vv07s0130g00170.t01 (Vitis vinifera), 3'ss of exon 8
----------------tgtttagtggaa--ctttaactcagcattt-tac-tgaatgttaatatatgtctg-tcatttgctttgccttgagcacataataagatcaattggtcggacgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT
                 || || | | |   || || |   ||||| | | | ||  || |    ||| || || ||     ||  |  |||  || |    ||       ||     ||||||| || ||||||||||| |||||||| ||||||||| |||| |||  ||| || ||| | | |||| | |  |||||||| || ||  | || ||  |
gcaagtgacaattattagtataattgcatgtttcaatttctcatttctgcattaactttgaggcttgtgtgatctttcatgatgaatgtagcttattaatctattttgctttcctcttcagATATCCAATTTTGGAACAAAAACAAGTCTATGGAAGGACTATCTGCAAAGTCGGTTGTTGTGAGCTTTATATCTCAGTTGATTGTCTTCCTCTATTTACT

upper sequence: PP1S64_201V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ29253 (Selaginella moellendorffii), 3'ss of exon 8
tgtttagtggaactttaactcagcattttactgaatgttaatatatgtctgtcatttgctttgccttgagcac-ataataagatcaattggtcggacgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT
                                           || || | |  |   ||||||     ||||  |      |   ||   |  |  | |||||| |||||||||||||| |||||||| ||||| || || ||||| || || || ||| |||||||| | || ||| |  |||| ||  | ||||||||
------------------------------------------gtaagtttattgt---ctttgc----ggcactgtttcttaactcatgactacgttgtagATATCCAGTTTTGGAACAAAAACAAGTCGATGGAGGGCTTGTCAGCTCGATCAGTTGTTGTCAACTTTTTCTGTCAGCTTGTCGTTTTCCTCTACTTGTT

upper sequence: PP1S64_201V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ13811 (Selaginella moellendorffii), 3'ss of exon 8
tgtttagtggaactttaactcagcattttactgaatgttaatatatgtctgtcatttgctttgccttgagcacataataagatcaattggtcggacgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT
                                           || || | |  | |   | ||  ||      |      |   ||   |  || | |||||| |||||||||||||| |||||||| ||||| ||||| ||||| || || || ||| |||||||| | || ||| |  |||| ||  | ||||||||
------------------------------------------gtaagtttattgtctttgtggcactg------tttcttaactcatgactacgatgtagATATCCAGTTTTGGAACAAAAACAAGTCGATGGAGGGATTGTCAGCTCGATCAGTTGTTGTCAACTTTTTCTGTCAGCTTGTCGTTTTCCTCTACTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctgtcatttgctttgccttgagcacataataagatcaattggtcggacgcagATATTCAGTTTTGGAACAAGAACAAGTCCATGGAAGGATTATCAGCACGGTCTGTCGTTATCAACTTTGTTTGCCAGTTGATCGTGTTTTTGTACTTGTT
                            ataataagatcaatt  TA-rich tract