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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccgtccagagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca...

Basic information

species Physcomitrella patens
transcript PP1S490_20V6.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA02G35990.1 (Glycine max), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagt-----tccgtccagagctaaaatttacatttcgcgtgaattagcgactc-ccatcccttttaggcacaattagtagaaaatatcaagactaataagttca
 || ||||| ||||| |||||||| || |||||||| ||||| |||||||||||| | | ||||||||||||||| ||||| |||||||| ||     | || | |      | || ||      | |||||   ||    || ||  | | |    |||   | | ||   ||  ||  ||       | | |    | |     
TGAAAAAGGAATTGGAGATGGCACAGTTAGCTATGGAATGGATGATGGTGATGACATTTACATGCGCTCTTGGACTGGCACGATTATTGGCCCCCATAATgtaaatatttccctgttcactctgtagatttatcctt---atggatgtgtgtccaatcatagttatcagttgcatgtaagaggctgcccccaaaaaggttaaa---

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA10G09280.2 (Glycine max), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagt-----tccgtccagagctaaaatttacatttcgcgtgaattagcgactc-ccatcccttttaggcacaattagtagaaaatatcaagactaataagttca
||| ||||| ||||| |||||||| || |||||||| ||||| |||||||||||| | | ||||||||||||||| ||||| |||||||| ||     | || |||     || || ||      | ||| |  |||    |||||  | | |    |||   | | |    ||  ||  ||       ||| | |  ||| |   
AGAAAAAGGAATTGGAGATGGCACAGTTAGCTATGGAATGGATGATGGTGATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtatttctctgttcactctgtagattcatcttt---atgaatgtgtgtccaatcatagttatcaattgcatgtaagagctgcccccaaaaatgttaaat---

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA03G26580.1 (Glycine max), 5'ss of exon 1
---------AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCA-CTATTATTGGACCAAGCCACgtcagttccgtccagag-ctaaaatttac--atttcgcgtgaattagcgactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca
          || ||||| ||||| |||||||| || | |||||| ||||| |||||||||||| | | |||||||||||||||      |    ||      ||      |  ||||  ||   ||  | |   |||   || |  |   || | |  | |   ||   |  ||   |||||||  | ||||| | || | | |        
TGAACGTGGTGAAAAAGGAATTGGAGATGGCACAGTTAACTATGGAATGGATGATGGTGATGACATTTACATGCGCTCTTGGACTATTGGCCCCCATAATgtaaatatttctttgttcactctgtagattcatccttatcgatgttacccaaaattggaaatataat---tgataaaaacaatta--aaaaaatctaaacagtga--------

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA19G38450.1 (Glycine max), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagt-tccgtccagagcta----aaatttacatttcgcgtgaattagcgactcccatcccttttaggc-acaattagtagaaaatatcaagactaataagttca
||| ||||| || || |||||||| || || ||||| ||||| |||||||||||| | | ||||||||||||||| || || |||||||| ||     | || | | |   || |   ||      | |||   ||   |    ||  ||   |   ||    | ||    |    || |||  ||| |  |   ||  ||     
AGAAAAAGGAATAGGAGATGGCACAGTTAGTTATGGAATGGATGATGGTGATGACATTTACATGCGCTCTTGGACTGGAACCATTATTGGTCCCTATAATgtaaatatttatctaacactgccttgatttttttttcttcaaatatgtgcatgttaaatgagctgtattttatttgtactagtgaattttcatg-tagcaa-----

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA03G35790.1 (Glycine max), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagt-tccgtccagagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcacaatt--agtagaaaatatcaagactaataagttca
||| ||||| || || ||||| || || |||||||| ||||| |||||||| ||| | | ||||||||||||||| || || |||||||| ||     | || | | |   || |   ||    || |  |||    |  || |   |    ||| |    |  ||   |||  | | |||      ||   | ||   |   
AGAAAAAGGAATCGGAGATGGAACAGTTAGCTATGGAATGGATGATGGTGACGACATTTACATGCGCTCTTGGACTGGAACCATTATTGGCCCCTATAATgtaaatatttatctattactgcc-ttgattttttttttctatcaaatatgtgcatgctaaatgagctgtattttatttgaaccagcgaattttcatgtatc--

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA15G21780.1 (Glycine max), 5'ss of exon 1
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagt-----tccgtccagagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcaca-attagtagaaaatatcaagactaataagttca
 || ||||| ||| | ||||||||  | |||||||  ||||| |||||||||||| | | |||||||||| |||| ||||| |||||||| ||     | || | |     || || ||      | ||| |   ||  ||     |  | | |   ||   | | ||   ||  | ||  |       ||| | |  |||     
TGAAAAAGGAATTAGAGATGGCACAATTAGCTATGTAATGGATGATGGTGATGACATTTACATGCGCTCTAGGACTGGCACCATTATTGGCCCCCAAAATgtaaatatttctctgttcactctgtagattcatccttatcgatgtgtgtccaatg--atagttatcagttgcatgtaagaggctgcccccaaaaatgttaaa----

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT2G36060.3 (Arabidopsis thaliana), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccgtc-cagagctaaaatttacatttcgcgtgaat--tagcgactcccatcccttttaggcacaattagtagaaaatatcaagac-taataagttca-----------------------
||||||||||||||| ||||| || || |||||||| ||||| ||||| |||||| | |  |||||||||||||| |||||||| || || ||   | |||| ||||   || | |   |    | | || ||    |||||  |||    |    ||   ||   | |   |      |  ||||   ||  | ||  | ||                        
AGAGAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACgt-agttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccgtc-cagagctaaaatttacatttcgcgtgaat--tagcgactcccatcccttttaggcacaattagtagaaaatatcaagac-taataagttca-----------------------
   |||||||||||| ||||| || || |||||||| ||||| ||||| |||||| | |  |||||||||||||| |||||||| || || ||   | |||| ||||   || | |   |    | | || ||    |||||  |||    |    ||   ||   | |   |      |  ||||   ||  | ||  | ||                        
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGT-Agttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGG--------ACCAAGCCACgtcagttccgtccagagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca-------------------------------------------------------------------------------
 |||||||||||||| ||||| || || |||||||| ||||| ||||| |||||| | |  ||||| |||||||| ||||| || || ||        ||  ||  |  ||  || | |     ||||| |||  |  ||||  |  ||    |    | ||   ||| ||   ||   | ||  |    |     || ||   ||                                                                                 
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctc-cttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT3G52560.1 (Arabidopsis thaliana), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGG--------ACCAAGCCACgtcagttccgtccagagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca
 |||||||||||||| ||||| || || |||||||| ||||| ||||| |||||| | |  ||||| |||||||| ||||| || || ||        ||  ||  |  ||  || | |     ||||| |||  |  ||||  |  ||    |    | ||   ||| ||   ||   | ||  |    |     || ||       
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctc-cttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcat-------

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT3G52560.2 (Arabidopsis thaliana), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCA--------AGCCACgtcagttccgtccagagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca
   |||||||||||| ||||| || || |||||||| ||||| ||||| |||||| | |  ||||| |||||||| ||||| || || || ||         ||  |  ||  || | |     ||||| |||  |  ||||  |  ||    |    | ||   ||| ||   ||   | ||  |    |     || ||       
---GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctttttctttatctgctaacattctc-cttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgc----

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT1G23260.1 (Arabidopsis thaliana), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagt-tccgtcca--gagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca
 |||||||||||||| ||||| || || |||||||| ||||| |||| ||||||  | |  ||||  |||||||| ||||| ||| |||| ||     | ||  || ||  || |  || ||   | ||   |||    |  ||  | |  |   ||    |  ||   |||||  || | | | |   ||   |   |||  
TGAGAAAGGTATTGGAGATGGTACTGTTAGCTATGGAATGGATGATGCTGATGATATTTATATGCAATCTTGGACTGGCACCATTCTTGGTCCTCCTAATgtatgtatctctctatcgatctctgagttttgttttagatttatctgtg--tttgatagagtaaagatgcaattttta-acacttttgtgagagaattgttgg

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: Vv08s0007g02580.t01 (Vitis vinifera), 5'ss of exon 2
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccgtccagagctaaaatttacatttcgcgtgaattagc---gactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca
||| || |||||||| ||||| || ||||||||||| ||||| ||||| |||||| | |  |||||||||||||| ||||| || || || ||     | || ||| || |    |   | ||  | | ||     |   ||      |   |    |   | |  |||  | |  || | | | |  | | || ||  |   
AGAAAAGGGTATTGGAGATGGTACTGTCAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACCATCATCGGTCCTCATAATgtaagtgcccttttaaagaacaacatgctttatatattctttgatcttgttacgtgacaaatatcagcatcactcttatata-tgttgata-tactacatgt-

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|208365088|gb|DC947324.1|DC947324
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|37821329|gb|BJ579395.1|BJ579395
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|162211664|gb|FC387952.1|FC387952
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|67573475|gb|BJ946299.1|BJ946299
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|100446255|gb|CJ970554.1|CJ970554
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|162176507|gb|FC352976.1|FC352976
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|208388041|gb|DC941694.1|DC941694
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|162248628|gb|FC424481.1|FC424481
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|67696855|gb|BJ957088.1|BJ957088
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|18348930|gb|BJ180979.1|BJ180979
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|15320319|gb|BI488125.1|BI488125
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|18355140|gb|BJ187199.1|BJ187199
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|100447101|gb|CJ971400.1|CJ971400
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|162245980|gb|FC424378.1|FC424378
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
EST: gi|67575457|gb|BJ948281.1|BJ948281
EST:     ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCAC                         TCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC
genomic: ATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccg ... gtttgtacagTCAGTTCATGAAGGTCGTATCTACACATTGAAACTGTTCTGCGACAAGGAC