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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatatttgtcccggaccagtcaagtttcaatgcactgtatgaggcaagtttgataagagaaattgattcatccag

Basic information

species Physcomitrella patens
transcript PP1S226_20V6.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S226_20V6.1 (Physcomitrella patens), 5'ss of exon 19
lower sequence: GRMZM2G123587_T01 (Zea mays), 5'ss of exon 13
GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcat-atttgtcccggaccagtcaagtttcaatgcactgtatgaggcaagtttgataagagaaattgattcatccag---------------------
 | |||||| | || || |  | |||    || ||  | ||||| |||||||||||||||||||||||   ||| | || ||       |   ||||||   |  ||  ||  ||  | |  |  |  |   |   |||| |||                        
ATACCATGCCGGACAGCAATGAGAGGAAGCTTCCCACTTAATGGGACATATTTTCAAGTTAATGAGgtgaacattagttatcatatgtaa--taagttttgctatacaatagaagaaacggctcttg-gtccatcagatttatcagcggtatgaatgtcattatgcag

upper sequence: PP1S226_20V6.1 (Physcomitrella patens), 5'ss of exon 19
lower sequence: GLYMA10G34600.1 (Glycine max), 5'ss of exon 22
GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatatttgtcccggaccagtcaagtttcaatgcactgtatgaggcaagtttgataagagaaattgattcatc-cag---------------------------------
 | || || || || || |  | |||    |||||  |||||||||| || ||||||||||||||||||||  ||    ||   |   ||  ||  ||||||  |||     |  | |   ||||    ||| || | | ||| | |                                 
ATACCTTGTAGGACAGCAACTAGAGGAAGCTTTCCACTGAATGGAACTTACTTTCAAGTTAATGAGgtatgtgta---atcaaagcttagataacattcaataaacttagcaactctaccctgatttt-gaatttcactaatcaccgccaaatttcataaacctttttaacatcatgaag

upper sequence: PP1S226_20V6.1 (Physcomitrella patens), 5'ss of exon 19
lower sequence: GLYMA20G32960.1 (Glycine max), 5'ss of exon 24
GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatatttgtcccggaccagtcaagtttcaatgcactgtatgaggcaagtttgataagagaaattgattcatccag----------------------------------
 | || || || || || |  |  ||    |||||  |||||||||| || ||||||||||||||||||||  ||    ||   |   ||  ||  ||||||   || |   |  | |   | ||    ||| || | | ||| |                                   
ATACCTTGTAGGACAGCAACTAGGGGAAGCTTTCCACTGAATGGAACTTACTTTCAAGTTAATGAGgtatgtgta---atcaaagcttagataatattcaataatctttgcaactctaccctcatttt-gaacttcactaatcaacgccaaatttcataaacctttttatcatcatgaag

upper sequence: PP1S226_20V6.1 (Physcomitrella patens), 5'ss of exon 19
lower sequence: Vv13s0074g00450.t01 (Vitis vinifera), 5'ss of exon 16
GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgca----tatttgtcccggaccagtcaagtttcaatgcactgtatga--ggcaa-------gtttgataagagaaattgattcatccag-------
 | ||||| ||||| ||||  | |||    |||||  | ||||| ||||||||||||||||||||||||        | ||| || | |   |    | ||||  |  ||| | ||   || |          |   ||| |  | || |   |    |       
ATACCATGTAGAACAGCCATGAGAGGTAGCTTTCCACTCAATGGCACATATTTTCAAGTTAATGAGgtaaatcttattctttctctctgctgaacatattttctgttaactctttggatggtagcaccaccactccctaaaatgagtttaaaaacatggaaccaac

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|22133008|gb|BQ827486.1|BQ827486
EST:     CCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAG                         GTTCTCTTCTGCAGGTGTTTGCAGATCATGCGAGTAGTCATGACCCACTGC
genomic: CCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatat ... attcatccagGTTCTCTTCTGCAGGTGTTTGCAGATCATGCGAGTAGTCATGACCCACTGC
EST: gi|162193628|gb|FC371233.1|FC371233
EST:     CCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAG                         GT--------G----T-TT-GCAGATCATGCGAGTAGTCATGACCCACTGC
genomic: CCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatat ... attcatccagGTTCTCTTCTGCAGGTGTTTGCAGATCATGCGAGTAGTCATGACCCACTGC