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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcatctgaacccctaactgcaacggtctcatcctgttaaagctgtccgcccggtttgcgtgaactagataacaagacgttttttctaattttctatgcagGCGTGTAAGAAGCTGGAAAGATATGATCTTTCTGATTGCGAGATTTATGCATCTTGCGAACCCTGCCCCATGTGTTTTGGCGCAATTCACCTGTCCAAAA

Basic information

species Physcomitrella patens
transcript PP1S21_311V6.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S21_311V6.2 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA13G17790.1 (Glycine max), 3'ss of exon 3
gcatctgaacccctaactgcaacg-gtctcatcctgttaaagctgtccgcccggtttgcgtga-actagataacaagacgttttttctaattttctatgcagGCGTGTAAGAAGCTGGAA-AGATATGATCTTTCTGATTGCGAGATTTATGCATCTTGCGAACCCTGCCCCATGTGTTTTGGCGCAATTCACCTGTCCAAAA
  ||||       | |||     | |  | ||  | ||| || |||        |||  |       | | ||  |  | |    | |  |  | | | ||||| || ||||||||  |  ||||| || ||| ||||||| || || ||||| ||||| ||||| ||||||||||| ||||| ||||| ||||| ||   ||
aaatctcgctgtatgactcatgtgtgcattatttttttatagatgtt-ataaactttatgcagtgtcaaaaaatgattcatgcagtgttttcattt-tacagGCTTGCAAGAAGCTTAAGCAGATA-GAACTTGCTGATTGTGAAATATATGCTTCTTGTGAACCTTGCCCCATGTGCTTTGGTGCAATCCACCTTTCTCGAA
















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|162222265|gb|FC397701.1|FC397701
EST:     TTAAGAACATGGATCCTACCGCTCATGCGGAAGTAACGGCAGTTCGCGAG                         GCGTGTAAGAAGCTGGAAAGATATGATCTTTCTGATTGCGAGATTTATGCA
genomic: TTAAGAACATGGATCCTACCGCTCATGCGGAAGTAACGGCAGTTCGCGAGgtatgtttca ... ttctatgcagGCGTGTAAGAAGCTGGAAAGATATGATCTTTCTGATTGCGAGATTTATGCA
EST: gi|162223537|gb|FC399167.1|FC399167
EST:     TTAAGAACATGGATCCTACCGCTCATGCGGAAGTAACGGCAGTTCGCGAG                         GCGTGTAAGAAGCTGGAAAGATATGATCTTTCTGATTGCGAGATTTATGCA
genomic: TTAAGAACATGGATCCTACCGCTCATGCGGAAGTAACGGCAGTTCGCGAGgtatgtttca ... ttctatgcagGCGTGTAAGAAGCTGGAAAGATATGATCTTTCTGATTGCGAGATTTATGCA
EST: gi|67695365|gb|BJ955598.1|BJ955598
EST:     TTAAGAACATGGATCCTACCGCTCATGCGGAAGTAACGGCAGTTCGCGAG                         GCGTGTAAGAAGCTGGAAAGATATGATCTTTCTGATTGCGAGATTTATGCA
genomic: TTAAGAACATGGATCCTACCGCTCATGCGGAAGTAACGGCAGTTCGCGAGgtatgtttca ... ttctatgcagGCGTGTAAGAAGCTGGAAAGATATGATCTTTCTGATTGCGAGATTTATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgcccggtttgcgtgaactagataacaagacgttttttctaattttctatgcagGCGTGTAAGAAGCTGGAAAGATATGATCTTTCTGATTGCGAGATTTATGCATCTTGCGAACCCTGCCCCATGTGTTTTGGCGCAATTCACCTGTCCAAAA
                                     ttctaat  putative branch site (score: 2)
                                 ttttttctaattttct  CT-rich tract
                                 ttttttctaattttct  TA-rich tract