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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtactctattgtcaaatggattactatttcatgctcagttacaaatctgtctattgataatttatctgacaatgacgctgcctgctgcagGTTTTCCGGCATACAATGTTTGGACCTGAAGGTCGACCGCAGCACTGCTGTGCTTGGCTTAGTCTTGCGTGCACGTTTTCAGATAACGCGCACCCGAATG

Basic information

species Physcomitrella patens
transcript PP1S39_129V6.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S39_129V6.1 (Physcomitrella patens), 3'ss of exon 17
lower sequence: GRMZM5G886363_T01 (Zea mays), 3'ss of exon 2
----gtgagtactctattgtcaaatggattactattt-catgctcagttacaaatctgtctattgataa----tttat-ctgacaatga---------cgctgcctgctgcagGTTTTCCGGCATACAATGTTTGGACCTGAAGGTCGACCGCAGCACTGCTGTGCTTGGCTTAGTCTTGCGTGCACGTTTTCAGATAACGCGCACCCGAATG
    ||   || | | || |  | ||   ||  |||| |||| ||  ||| | |  |    | | |  |    ||||| |||| | | |          ||||    |  ||||| ||| |  ||||||||||||| || |||||||| || ||||| || |||||||||||| |    || ||||  ||| ||||    ||     | | | 
gtaagtttatattttgtt-tatattgctgtatgatttgcatggtcctttaaataatttctaagtaactagacttttatgctgatagtaagtacttttttgctgggacccacagGTCTTCAGAAATACAATGTTTGGCCCAGAAGGTCGTCCACAGCATTGTTGTGCTTGGCTTGGAGCCGCTTGCAGTTTTCCAGAATGTGCTTCTGCAATTA
















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|100388959|gb|BY988835.1|BY988835
EST:     AACATGCATCACTTAAAATGTTGTACTTCTATCGGCCTGATGTCACAGCG                         GTTTTCCGGCATACAATGTTTGGACCTGAAGGTCGACCGCAGCACTGCTGT
genomic: AACATGCATCACTTAAAATGTTGTACTTCTATCGGCCTGATGTCACAGCGgtgagtactc ... cctgctgcagGTTTTCCGGCATACAATGTTTGGACCTGAAGGTCGACCGCAGCACTGCTGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagttacaaatctgtctattgataatttatctgacaatgacgctgcctgctgcagGTTTTCCGGCATACAATGTTTGGACCTGAAGGTCGACCGCAGCACTGCTGTGCTTGGCTTAGTCTTGCGTGCACGTTTTCAGATAACGCGCACCCGAATG
                            atctgac  putative branch site (score: 3)
              tctattgataatttat  TA-rich tract