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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacactctgatgtaataaatctaatacctttcttgactatttgaagtatgagttatcatgtagatatctcacacaagaatgtctctgtagTTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCACACCCGCGTCGTGATCGACCATGGGGCCGTGCCCATATTTGTTCAACTCT

Basic information

species Physcomitrella patens
transcript PP1S63_171V6.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S63_171V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 3
-gtaacactctgatg-----taataaatctaatacctttcttgactatttgaagtatgagttatcatgtagatatctca--cacaagaatgtctctgtagTTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCACACCCGCGTCGTGATCGACCATGGGGCCGTGCCCATATTTGTTCAACTCT
  |  | ||   | |     |||   || |  ||     | ||||    |      ||  | |  ||| |  | ||     |   | |||   | |||||||||||||||| ||||| || ||||||||||| || || || || ||  | ||    |  || || ||||||||||| || || ||||||||  | ||  
tttggcgcttaaaaggtgcttaagcgattttttagtaaccatgaccccgttgtcgctggatgaaaatgaatttctcatgagctttataattcttttgtagTTTGAAGCCGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTC
















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|67575223|gb|BJ948047.1|BJ948047
EST:     TACCTCGGTTTGTTGAATTTTTGGGTCGTGGAGATTTTCCACAGTTACAG                         TTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCAC
genomic: TACCTCGGTTTGTTGAATTTTTGGGTCGTGGAGATTTTCCACAGTTACAGgtaacactct ... gtctctgtagTTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCAC
EST: gi|162267820|gb|FC444421.1|FC444421
EST:     TACCTCGGTTTGTTGAATTTTTGGGTCGTGGAGATTTTCCACAGTTACAG                         TTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCAC
genomic: TACCTCGGTTTGTTGAATTTTTGGGTCGTGGAGATTTTCCACAGTTACAGgtaacactct ... gtctctgtagTTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCAC
EST: gi|67703759|gb|BJ963992.1|BJ963992
EST:     TACCTCGGTTTGTTGAATTTTTGGGTCGTGGAGATTTTCCACAGTTACAG                         TTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCAC
genomic: TACCTCGGTTTGTTGAATTTTTGGGTCGTGGAGATTTTCCACAGTTACAGgtaacactct ... gtctctgtagTTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actatttgaagtatgagttatcatgtagatatctcacacaagaatgtctctgtagTTTGAAGCCGCGTGGGCGCTTACAAATATTGCATCCGGAACGTCTGACCACACCCGCGTCGTGATCGACCATGGGGCCGTGCCCATATTTGTTCAACTCT
                              atctcac  putative branch site (score: 3)
                                            tgtctct  putative PPT
                 ttatcat  TA-rich tract