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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAAAACAAGTATCATCACGCGATTCATGTATGACAAATTTGACAACACGTACCAGgttagcttctttccctcctagtcttcttgcataaaaattgtgtgctgctgacatttctggtttgccgtacatcaataactccatactctggatggtttcattctttttgttttttctagtaagaacctgtcctggcaggttcaaggttggtgctattgatgagttttcccttgataactttggcag

Basic information

species Physcomitrella patens
transcript PP1S39_147V6.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S39_147V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA01G41090.1 (Glycine max), 5'ss of exon 1
GTAAAACAAGTATCATCACGCGATTCATGTATGACAAATTTGACAACACGTACCAGgttagcttctttccctcctagtcttcttgcataaaaattgtgtgctgctgacatttctggtttgccgtacatcaataactccatactctggatggtttcattctttttgttttttctagtaagaacctgtcctggcaggttcaaggttggtg-ctattgatgagttttcccttgataactttggcag
       |||||  | |  | | ||| ||  |||  | | ||     |      |   |||| || |  |   ||     || || || | || | ||  |  |  || | || ||| ||        || || |||       |     |||||| | | |||  |||    ||  | |     |   | ||  | |     || |  | |||                             
TCTTGCAAAGTACAAGCTGGTG-TTCTTGGGTGATCAGTCTGTGGGAA------AAACTAGCATCATCACTCGCT-----TCATGTATGACAAATTTG-ACAAC--ACTTATCAGgtctgatcagatccactatctcagccactttttaagtttcaatgtgtttcctttgatcagggaaataaaatgacgacaaatgctgcactgctaaccatta----------------------------

upper sequence: PP1S39_147V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT4G39890.1 (Arabidopsis thaliana), 5'ss of exon 1
GTAAAACAAGTATCATCACGCGATTCATGTATGACAAA-TTTGACAACACGTACCAGgttagcttctttccctcctagtcttcttgcataaaaattgtgtgctgc-tgacatttctggtttgccgtacatcaataactccatactctggatggtttcattctttttgttttttctagtaagaacctgtcctggcaggttcaaggttggtgctattgatgagttttcccttgataactttggcag
                             | || |||| ||| |      || |   |    |   | |  |    |  |      ||| |   | || |  ||  |||||  |  |     ||    | ||   | |   ||| | |  |  ||||| |  |||||||| |||   |||   | | ||   ||     |||| ||  |    ||  |   ||||   ||| |   | ||    
-----------------------------TTTGGCAAAGTTTAAACTGGTGTTCTTAGGAGACCAATCTGTCGGAAAAACCAGCATCATCAC--TCGTTTCATGTATGACAAATTCGAC--ACCACGTACCAGgtatt---tacacagattcctttcacttgttttgtttattcatttaaattcttctct--gcgacaacaagtttcttttgttt--tcgtttttttattgtttgatctg----

upper sequence: PP1S39_147V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT2G44610.1 (Arabidopsis thaliana), 5'ss of exon 1
GTAAAACAAGTATCATCACGCGATTCATGTATGACAAATTTGACAACACGTACCAGgttagcttctttccctcctagtcttcttgcataa-aaattgtgtgctgctgacatttctggtttgccgtacatcaataactccatactctggatggtttcattctttttgttttttctagtaagaacctgtcctggcaggttcaaggttggtgctattgatgagttttcccttgataactttggcag
       |||||| | |  | | ||| ||   ||  |||  | |  ||      |    ||  || || |    |     || || |  | |||||        || ||        ||| |  |     |||      ||  ||| || | |      | |||  || | | | |   ||   |   | || |  | | |||   ||   ||||                            
ACTCGCTAAGTATAAGCTGGTGTTTC-TGGGAGATCAATCCGTCGGCA------AAACCAGTATCATTACTCGAT-----TCATGTACGACAAATTCGACAACACTTACCAGgtaaatttccattgttcaaatctaggtattatctcgacgatgcacgacgtttgcttctattttgagggattatagtcgggaaaatcccagg---gtttgattg----------------------------

upper sequence: PP1S39_147V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv15s0021g00640.t01 (Vitis vinifera), 5'ss of exon 1
GTAAAACAAGTATCATCACGCGATTCATGTATGACAAATTTGACAACACGTACCAGgttagc-ttctttccctcctagtcttcttgcataaaaattgtgtgctgctgacatttctggtttgcc-gtacatcaataactccatactctggatggtttcattctttttgttttttctagtaagaacctgtcctggcaggttcaaggttggtgctattgatgagttttcccttgataactttggcag
      ||||||  | | ||   ||| ||   ||| |||  | |   | |       | | |  ||  | | |    | |   ||  | || |  | |  | |     | ||   | | |||  ||  ||| ||   ||   | | | | ||||||   | ||  | ||  || | ||  |||  |||     |  | ||                                            
TCTCGCCAAGTACAAGCTCGTC-TTCTTGGGAGACCAATCCGTCGGAAAGACTAGCATCATCACTCGATTCATGTACGACAAATTCGACAACACCTATCAGgtcaaatctttatggatctgcttgtttatcgatt-ttcagcaattttgttggtttgtgttttggttttagttttggtgcgaatttgtttgatcccgatcct------------------------------------------

upper sequence: PP1S39_147V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EDP09951 (Chlamydomonas reinhardtii), 5'ss of exon 2
-------------------------GTAAAACAAGTATCATCACGCGATTCATGTATGACAAATTTGACAACACGTACCAGgttagcttctttccctcctagtcttcttgcataaaaattgtgtgctgctgacatttctggtttgccgtacatcaataactccatactctggatggtttcattctttttgttttttctagtaagaacctgtcctggcaggttcaaggttggtgctattgatgagttttcccttgataactttggcag
                         | || ||    |||||||| ||||||||||||||||| || || ||||||||||||||  || |  |   | | |    ||| |  | ||  |    |     |   | |||  ||| | |||| ||                                                                                                                   
GTCTTCCTGGGAGACCAGTCTGTGGGCAAGACCTCCATCATCACCCGATTCATGTATGACAAGTTCGATAACACGTACCAGgt--gcgtactctgcgcat----ttcctttacaacgacaacgcctgacatgcttttgcggtct-ccgtgcag------------------------------------------------------------------------------------------------------------------

upper sequence: PP1S39_147V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ30542 (Selaginella moellendorffii), 5'ss of exon 1
GTAAAACAAGTATCATCACGCGATTCATGTATGACAAATTTGACAACACGTACCAGgttagcttctttccctcctagtcttcttgcataaaaattgtgtgctgctgacatttctggtttgccgtacatcaataactccatactctggatggtttcattctttttgttttttctagtaagaacctgtcctggcaggttcaaggttggtgctattgatgagttttcccttgataactttggcag
                                       |||  ||   |||| || |   |||  |   |    |||||    |     ||   | |        ||     |  | |    ||  |     |   |||||   | |||   | |    |||  | | |   | |  |   |      |  |  ||||||                                         
-------------------------------------GCTTGCAAA---GTACAAGCTCGTCTTTCTCGGCGATCAGTCT----GTGGGGAAGACGAGCATCATC-ACGCGATTCATGTATGATAAGTTTGACAACACATACCAGgtatgagattacgagtttcttctctctcactttgg--caaattggaaattttcaag-----------------------------------------

upper sequence: PP1S39_147V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ22994 (Selaginella moellendorffii), 5'ss of exon 1
GTAAAACAAGTATCATCACGCGATTCATGTATGACAAATTTGACAACACGTACCAGgttagcttctttccctcctagtcttcttgcataaaaattgtgtgctgctgacatttctggtttgccgtacatcaataactccatactctggatggtttcattctttttgttttttctagtaagaacctgtcctggcaggttcaaggttggtgctattgatgagttttcccttgataactttggcag
                                       |||  ||   |||| || |   |||  |   |    |||||    |     ||   | |        ||     |  | |    ||  |     |   |||||   | |||   | |    |||  | | |     |   ||  ||    |     ||||||                                         
-------------------------------------GCTTGCGAA---GTACAAGCTCGTCTTTCTCGGCGATCAGTCT----GTGGGGAAGACGAGCATCATC-ACGCGATTCATGTATGATAAGTTTGACAACACATACCAGgtatgagattacgagtttcttctctcactttggcaaattg----gaatttttcaag-----------------------------------------

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|208346149|gb|DC917102.1|DC917102
EST:     CAAGTATCATCACGCGATTCANGTATGACAAA-TTGACAACACGTACCAG                         GCAACTATTGGTATTGATTTTCTCTCCAAGACCATGTATCNTGAGGATCGC
genomic: CAAGTATCATCACGCGATTCATGTATGACAAATTTGACAACACGTACCAGgttagcttct ... actttggcagGCAACTATTGGTATTGATTTTCTCTCCAAGACCATGTATCTTGAGGATCGC