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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagagtagagcgatgataatctttgaagtttcttcaaagccgaagctatgatgctgatcttggttaacctgtgagctgtgaaaaatcatttatctcgcagGATCCAGCTGTTACAGATGTTGCTATTGCTGCACTTAATGGGTTGAAAATGGGTGACAAGACTTTAAGCGTGCGTCGTGCTTCTGCCAG

Basic information

species Physcomitrella patens
transcript PP1S58_254V6.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S58_254V6.1 (Physcomitrella patens), 3'ss of exon 13
lower sequence: Vv00s0611g00010.t01 (Vitis vinifera), 3'ss of exon 2
gagagtagagcgatgataatctttgaagtttcttcaaagccgaagctat--gatgctgatcttggttaacctgtgagctgtgaaaaatcatttatctcgcagGATCCAGCTGTTACAGATGTTGCTATTGCTGCACTTAATGGGTTGAAAATGGGTGACAAGACTTTAAGCGTGCGTCGTGCTTCTGCCAG
  |       | ||   | ||||| ||| |   | |      |   |    || | | ||| |   | || | ||  | |  ||   | || |      |||||||||||||| || ||  |||||  |||||| |||||||| |||||||||||||| |||||| | |  |||||||||||  | |   |
ttgctcttctcaattgcagtcttttaagatatataacctttcatttttctggaaggtcatcctttatgacatctggtcagctaat--ttatatgcacttcagGATCCAGCTGTGACTGACATTGCTTGTGCTGCGCTTAATGGCTTGAAAATGGGTGATAAGACTCTTACAGTGCGTCGTGCCACAGTTGG
















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|162183241|gb|FC360391.1|FC360391
EST:     AAGACCGGGACACAGGCAACTCTAAAGGATATGGTTTCTGTGTATATCAG                         GATCCAGCTGTTACAGATGTTGCTATTGCTGCACTTAATGGGTTGAAAATG
genomic: AAGACCGGGACACAGGCAACTCTAAAGGATATGGTTTCTGTGTATATCAGgtatgcatgc ... tatctcgcagGATCCAGCTGTTACAGATGTTGCTATTGCTGCACTTAATGGGTTGAAAATG
EST: gi|162184034|gb|FC359404.1|FC359404
EST:     AAGACCGGGACACAGGCAACTCTAAAGGATATGGTTTCTGTGTATATCAG                         GATCCAGCTGTTACAGATGTTGCTATTGCTGCACTTAATGGGTTGAAAATG
genomic: AAGACCGGGACACAGGCAACTCTAAAGGATATGGTTTCTGTGTATATCAGgtatgcatgc ... tatctcgcagGATCCAGCTGTTACAGATGTTGCTATTGCTGCACTTAATGGGTTGAAAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgatgctgatcttggttaacctgtgagctgtgaaaaatcatttatctcgcagGATCCAGCTGTTACAGATGTTGCTATTGCTGCACTTAATGGGTTGAAAATGGGTGACAAGACTTTAAGCGTGCGTCGTGCTTCTGCCAG
                ggttaac  putative branch site (score: 3)
                                           tttatctc  putative PPT
                                 tgaaaaatcatttat  TA-rich tract