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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCTTTTTCAAACAAGAGATGGAGCTGTCTTTGATAGGGCTGCATAACGCCGGAAAAACCTCTCTCGTCAATGTCATTGCGgttcgtgcttccaacccattctgtttctgtgtgctcctgtttgtatttgggcttgttcatacaatgtttgtggggctcttaatgttagcagcacaaggat...

Basic information

species Physcomitrella patens
transcript PP1S263_59V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S263_59V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os03g10370.1 (Oryza sativa), 5'ss of exon 2
TCTCTTTTTCAAACAAGAGATGGAGCTGTCTTTGATAGGGCTGCATAACGCCGGAAAAACCTCTCTCGTCAATGTCATTGCGgttcgtgcttccaacccattctgtttctgtgtgctcctgtttgtatttgggcttgttcatacaatgtttgtggggctcttaatgttagcagcacaaggat
||| |||||||| |||||||||||||| || ||||||||||| || || || || ||||| || || || ||||||||||| ||  ||             || ||||||   |     | ||| |      |||   | |||     ||     || ||   |||| | | |||       
TCTTTTTTTCAAGCAAGAGATGGAGCTTTCCTTGATAGGGCTTCAAAATGCTGGGAAAACATCGCTTGTGAATGTCATTGCTgtaagta------------tcagtttcttaat-----tatttattcacttgctgaattataatgatttctcatggatcaccatgtaatctgcag------

upper sequence: PP1S263_59V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G081622_T01 (Zea mays), 5'ss of exon 2
TCTCTTTTTCAAACAAGAGATGGAGCTGTCTTTGATAGGGCTGCATAACGCCGGAAAAACCTCTCTCGTCAATGTCATTGCGgttcgtgcttccaacccattctgtttctgtgtgctcctgtttgtatttgggcttgttcatacaatgtttgtggggctcttaatgttagcagcacaaggat
 ||||| ||||| |||||||||||||| || ||||||||||| || || || || ||||| || || || ||    ||||| ||  ||  |    |  | ||  ||  |  |    | |||  |||  |||      |  ||  |   || ||     | |  || || ||||         
CCTCTTCTTCAAGCAAGAGATGGAGCTTTCCTTGATAGGGCTCCAAAATGCTGGGAAAACGTCACTTGTGAACTCTATTGCTgtaagtattaggcattcttttggtaccactcatatactggatgt--ttgatgaaatatatttatccttggtaaacatgt--atttttgcag---------

upper sequence: PP1S263_59V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT5G37680.1 (Arabidopsis thaliana), 5'ss of exon 2
TCTCTTTTTCAAACAAGAGATGGAGCTGTCTTTGATAGGGCTGCATAACGCCGGAAAAACCTCTCTCGTCAATGTCATTGCGgttcgt---gcttccaacccattctgtttctgtgtgctcctgtttgtatttgggcttgttcatacaatgtttgtggggctcttaatgttagcagcacaaggat
  | ||||||||||||||||||||||||||  |  | || || || || || || || || ||||| ||||||| |||||| ||  ||     || || |  |   | |    |     |  | ||            |  || |||   ||||       | ||    || |       | |  
CTTGTTTTTCAAACAAGAGATGGAGCTGTCACTCGTTGGACTTCAAAATGCTGGGAAGACTTCTCTTGTCAATGCCATTGCTgtgagtagaaatttcatcagaggttttagtcgataaatagtattctcgaacaaatctaatcttacg-cgtttcacttcttgttttctttggatttgtcaag--

upper sequence: PP1S263_59V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv03s0091g00970.t01 (Vitis vinifera), 5'ss of exon 2
TCTCTTTTTCAAACAAGAGATGGAGCTGTCTTTGATAGGGCTGCATAACGCCGGAAAAACCTCTCTCGTCAATGTCATTGCGgttcgtgcttccaacccattctgttt-ctgtgtgctcctgtttgtatttgggcttgttcatacaatgtttgtgg--ggctcttaatgttagcagcacaaggat
 ||||||||||||||||| |||||||| ||||||||||| || || || || |||||||| || || || ||||| ||||| ||  ||       |  ||   |||    | | |  |  |||||   | |    |  ||  |       | ||||     |     |||             | 
CCTCTTTTTCAAACAAGAAATGGAGCTATCTTTGATAGGCCTTCAGAATGCAGGAAAAACATCACTTGTAAATGTTATTGCAgtaagtaaagttcatgcaaaatgtgagttttcttttattgtttccctctcctttctttggtttggcactggtggctaaattcctttgtggatcttgttgcaag

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|18362953|gb|BJ195025.1|BJ195025
EST:     TGATAGGGCTGCATAACGCCGGAAAAACCTCTCTCGTCAATGTCATTGCG                         TCCGGTGGCTTCACTGAAGACATGATACCCACG
genomic: TGATAGGGCTGCATAACGCCGGAAAAACCTCTCTCGTCAATGTCATTGCGgttcgtgctt ... tgccatgcagTCCGGTGGCTTCACTGAAGACATGATACCCACG