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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatatttgtcccggaccagtcaagtttcaatgcactgtatgaggcaagtttgataagagaaattgattcatccaggttctcttctgcag

Basic information

species Physcomitrella patens
transcript PP1S226_20V6.2
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S226_20V6.2 (Physcomitrella patens), 5'ss of exon 19
lower sequence: GRMZM2G123587_T01 (Zea mays), 5'ss of exon 13
GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcat-atttgtcccggaccagtcaagtttcaatgcactgtatgaggcaag---tttgataagagaaattgatt---catccaggttctcttctgcag
 | |||||| | || || |  | |||    || ||  | ||||| |||||||||||||||||||||||   ||| | || ||       |   ||||||   |  ||  ||  ||  | |    ||| |     | ||| ||      |     |    || |||||
ATACCATGCCGGACAGCAATGAGAGGAAGCTTCCCACTTAATGGGACATATTTTCAAGTTAATGAGgtgaacattagttatcatatgtaa--taagttttgctatacaatagaagaaacggctcttggtccatcagatttatcagcggtatgaatgtcattatgcag

upper sequence: PP1S226_20V6.2 (Physcomitrella patens), 5'ss of exon 19
lower sequence: GLYMA10G34600.1 (Glycine max), 5'ss of exon 22
GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatatttgtcccggaccagtcaagtttcaatgcactgtatgaggcaagtttgataagagaaattgattcatccaggttctcttctgcag--------------------
 | || || || || || |  | |||    |||||  |||||||||| || ||||||||||||||||||||  ||    ||   |   ||  ||  ||||||  |||     |  | |   ||||    ||| || | | |||   |     ||    |                     
ATACCTTGTAGGACAGCAACTAGAGGAAGCTTTCCACTGAATGGAACTTACTTTCAAGTTAATGAGgtatgtgta---atcaaagcttagataacattcaataaacttagcaactctaccctgatttt-gaatttcactaatcaccgccaaatttcataaacctttttaacatcatgaag

upper sequence: PP1S226_20V6.2 (Physcomitrella patens), 5'ss of exon 19
lower sequence: GLYMA20G32960.1 (Glycine max), 5'ss of exon 24
GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatatttgtcccggaccagtcaagtttcaatgcactgtatgaggcaagtttgataagagaaattgattcatccaggttctcttctgcag--------------------
 | || || || || || |  |  ||    |||||  |||||||||| || ||||||||||||||||||||  ||    ||   |   ||  ||  ||||||   || |   |  | |   | ||    ||| || | | ||| | |     ||    |                     
ATACCTTGTAGGACAGCAACTAGGGGAAGCTTTCCACTGAATGGAACTTACTTTCAAGTTAATGAGgtatgtgta---atcaaagcttagataatattcaataatctttgcaactctaccctcatttt-gaacttcactaatcaacgccaaatttcataaacctttttatcatcatgaag

upper sequence: PP1S226_20V6.2 (Physcomitrella patens), 5'ss of exon 19
lower sequence: Vv13s0074g00450.t01 (Vitis vinifera), 5'ss of exon 16
GTGCCATGCAGAACTGCCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgca----tatttgtcccggaccagtcaagtttcaatgcactgtatgag-gcaagtttgataagagaaattgattcatccaggttctcttctgcag-
 | ||||| ||||| ||||  | |||    |||||  | ||||| ||||||||||||||||||||||||        | ||| || | |   |    | ||||  |  ||| | ||   |  ||    |  |         ||   |  |    |       ||  
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|162193627|gb|FC371232.1|FC371232
EST:     CCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAG                         GTGTTTGCAGATCATGCGAGTAGTCATGACCCACTGCGAGTTTCCCGAACT
genomic: CCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatat ... tcttctgcagGTGTTTGCAGATCATGCGAGTAGTCATGACCCACTGCGAGTTTCCCGAACT
EST: gi|162193628|gb|FC371233.1|FC371233
EST:     CCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAG                         GTGTTTGCAGATCATGCGAGTAGTCATGACCCACTGCGAGTTTCCCGAACT
genomic: CCAACAAAGGCTCTTTTCCTTTGAATGGAACATATTTTCAAGTTAATGAGgtatgcatat ... tcttctgcagGTGTTTGCAGATCATGCGAGTAGTCATGACCCACTGCGAGTTTCCCGAACT