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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctcttcacttgatattcccttacaagcagtatcatctttattgatactgagaaggagaatacatcgtgatacatttttattgatgccgatatt...

Basic information

species Physcomitrella patens
transcript PP1S37_304V6.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S37_304V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os02g47110.1 (Oryza sativa), 5'ss of exon 3
AGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattct-cttcacttgatattcccttacaagcagtatcatctttattgatactgagaaggagaatacatcgtgatacatttttatt-gatgccgatatt
||| || |||||||| ||   ||||||||| ||||| || || ||||||||||| ||| | ||||||||| ||||||||||||| || || || |||||||||  || |  |||  |||   ||  |||    | | ||        |||  | |   |  | |  | | |  |  | |  |  ||||| |||   || |  
AGTACAGTACAAGAACGTGATGTTTACAGTATGGGATGTCGGTGGCCAAGAGAAGTTGAGGCCTCTGTGGAGGCATTACTTCAATAATACGGATGGTTTGgtatgttttgtttcctttgtggttatctttttgggaatacgtgaaagatttgtgcatcgttgcattaaagaaggaaagaagtggttatttgattttgaca--

upper sequence: PP1S37_304V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os10g42940.1 (Oryza sativa), 5'ss of exon 3
AGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctcttcacttgatattcccttacaagcagtatcatctttattgatactgagaaggagaatacatcgtgatacatttttattgatgccgatatt--
|||||||||||||||||| | ||| || |||||||| ||||| ||||| || |||||| | ||  | ||| |||| |||||||||||||| || | | |||| | |  | ||  |      |    |  | ||| | ||       |    | || | |   |   ||| || |   |       ||| |    |  | |  
AGTTCAATACAAGAATGTGGTGTTCACTGTGTGGGATGTTGGTGGCCAGGAAAAATTGAGGCCCTTATGGAGGCACTACTTCAACAACACCGATGCTCTGgtcactctttttttcccctcttcttttatccagcggcataggga--aacatttcttacacataacgtacctcctttgaacaagcaattcactttgtgacttt

upper sequence: PP1S37_304V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G113995_T01 (Zea mays), 5'ss of exon 3
AGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctctt---cacttgatattcccttacaagcagtatcatctttattgatactgagaaggagaatacatcgtgatacatttttattgatgccgatatt--
||||||||||||||||||   |||||| |||||||| ||||| |||||||| || ||| | ||  ||||| |||| ||||||||||| ||||| || ||||||  || | ||    |  |||||||    |  |  |    |  |  || ||     |||  ||  |  |   |  ||     ||| | ||| ||    |||   
AGTTCAATACAAGAATGTGATGTTTACTGTGTGGGATGTTGGTGGCCAAGAAAAGTTGAGGCCCTTGTGGAGGCACTACTTCAACAATACTGATGGCTTGgtatgttttattgctaaaatgatattgatctgtactctactttgtaattgttctgcttgatgagttgggttacttatg-----tttgtcttggtgagtttatggg

upper sequence: PP1S37_304V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G011518_T01 (Zea mays), 5'ss of exon 3
AGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctcttcacttgatattcccttacaagcagtatcatctttatt-gatactgagaaggagaatacatcgtgatacatttttattgatgccgatatt
 ||||||||||||||||| | ||| || |||||||| ||||| ||||| |||||  |  | || |||||| |||| ||||||||||||||||| | | |||| | | ||||    |   | |  |     |||| | || |  | ||||  |   ||| |      ||| |  ||| |     | || || | |    | |
GGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAACAACACTGATGCTCTGgtcattactctcgtttctgtttcacaagtgaagcggcataaattctattcaaagttgaaattttacatagaa-gtgtttatgctgtaatgtttcttccact

upper sequence: PP1S37_304V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G106795_T03 (Zea mays), 5'ss of exon 3
AGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctcttcacttgatattcccttac-aagcagtatcatctttattgatactgagaaggagaatacatcgtgatacatttttattgatgccgatatt
||||||||||||||||||   |||||| || ||||| ||||| |||||||| || ||| | ||  ||||| |||| ||||||||||| ||||| || ||||||  ||   |   |||   |  || |||  ||    ||||   | | |||  | ||    |    |    | | | ||  | ||  |   | |     ||
AGTTCAATACAAGAATGTGATGTTTACTGTTTGGGATGTTGGTGGCCAAGAAAAGTTGAGGCCCTTGTGGAGGCACTACTTCAACAATACTGATGGCTTGgtatgtttattattcttttaagacctttatgaaatgatatcgattgt-ttgtaattgttctgcttgacgggttgggttatttattcttcacttcttgagtt

upper sequence: PP1S37_304V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
AGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattc-----tcttcacttgatattcccttacaagcag---------tatcatctttattgatactgagaaggagaatacatcgtgatacatttt-tattgatgccg--atatt--------------------------------------------------------------------------------
|||||| |||||||||||   ||| ||||| ||||| ||||| |||||||||||| || ||||||| ||| ||||||||||||| || ||||| ||  | |||  |       | ||   | ||| ||  ||| ||  |||         | |||   || ||    ||        | |||  |  |  || ||||  |  |||||  |   |||                                                                                 
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag

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|208360587|gb|DC930859.1|DC930859
EST:     AGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGNTTG                         ATTTACGTTGTCGATTCATGTGATANAGANCGAATCGACAAGGCAGCGAGC
genomic: AGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctc ... gcacttacagATTTACGTTGTCGATTCATGTGATAGAGAACGAATCGACAAGGCAGCGAGC
EST: gi|162172685|gb|FC348066.1|FC348066
EST:     AGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTG                         ATTTACGTTGTCGATTCATGTGATAGAGAACGAATCGACAAGGCAGCGAGC
genomic: AGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctc ... gcacttacagATTTACGTTGTCGATTCATGTGATAGAGAACGAATCGACAAGGCAGCGAGC
EST: gi|18362447|gb|BJ194517.1|BJ194517
EST:     AGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTG                         ATTTACGTTGTCGATTCATGTGATAGAGAACGAATCGACAAGGCAGCGAGC
genomic: AGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctc ... gcacttacagATTTACGTTGTCGATTCATGTGATAGAGAACGAATCGACAAGGCAGCGAGC
EST: gi|18365645|gb|BJ197722.1|BJ197722
EST:     AGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTG                         ATTTACGTTGTCGATTCATGTGATAGAGAACGAATCGACAAGGCAGCGAGC
genomic: AGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattctc ... gcacttacagATTTACGTTGTCGATTCATGTGATAGAGAACGAATCGACAAGGCAGCGAGC