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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTTCATGGAGGGCGCCTACAACCGTGTTCTAAGTGCCCGTCAAGCTGTTCCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgatacaccaaggaattatgaatgactttctcggtggattgactagaaactgcgtttttgcaaggatgctcttactgttgcaaagatcatggtaatgatgtactcaataattactcatttcattgtgcacag

Basic information

species Physcomitrella patens
transcript PP1S68_29V6.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S68_29V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os07g25420.2 (Oryza sativa), 5'ss of exon 4
CGTTCATGGAGGGCGCCTACAACCGTGTTCTAAGTGCCCGTCAAGCTGTTCCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG-
| || |||||||| || |||||||| ||  | || || || || ||||| || || ||||| ||||||||||| ||||| ||||||||||| || |||||    |||| || | |  |  | ||||    ||  | ||  | | || ||||| |  ||| |  ||     | |  || | ||||   ||  || | |  |  |    ||| |                              
CATTTATGGAGGGTGCTTACAACCGAGTGTTGAGCGCTCGCCAGGCTGTGCCCCACGAAACATATGTGTACTTCATGGATCTTCTTGCCAAAACAGTCAGgtcagtataattatattactgtattactggtgcttctcatttgatgtattgatttaaaatt-tgtgcagcccataat-ccctta---tttgaatgcttgttctgcacatgcag-----------------------------

upper sequence: PP1S68_29V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G073077_T01 (Zea mays), 5'ss of exon 4
CGTTCATGGAGGGCGCCTACAACCGTGTTCTAAGTGCCCGTCAAGCTGTTCCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgatacaccaaggaattatgaatgactttctcggtggattgactagaaactgcgtttttgcaaggatgctcttactgttgcaaagatcatggtaatgatgtactcaataattactcatttcattgtgcacag
| ||||||||||| ||||||||||| ||  |||| || || |||||||| |||||||| || ||||| ||||| ||||||||||| |||||||| || ||||  |    |    |  | |     | | ||  | | | ||||   |   |  || |||||        |||||| || |                                                       
CCTTCATGGAGGGTGCCTACAACCGAGTGTTAAGCGCTCGGCAAGCTGTGCCACATGAGACCTATGTTTACTTCATGGACCTTCTCGCCAAGACAGTTAGgtgagtgggattctgttactcctgtttatttgattgtttgattttatctca-ttgtgttttcc------tgctctcacag-------------------------------------------------------

upper sequence: PP1S68_29V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G121452_T01 (Zea mays), 5'ss of exon 4
CGTTCATGGAGGGCGCCTACAACCGTGTTCTAAGTGCCCGTCAAGCTGTTCCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatg-atacaccaaggaattatgaatgactttctcggtggattgactagaaactgcgtttttgcaaggatgctcttactgttgcaaagatcatggtaatgatgtactcaataattactcatttcattgtgcacag
| ||||||||||| ||||||||||| ||  |||| || || || ||||| |||||||| || || || ||||| || |||||||| ||||| || || ||||  |    || |    | |  ||  | | ||  | | | ||||   |   ||  | | | ||       |||| || ||| | || ||                                               
CCTTCATGGAGGGTGCCTACAACCGAGTGTTAAGCGCTCGGCAGGCTGTGCCACATGAGACCTACGTTTACTTCATCGACCTTCTCGCCAAAACAGTTAGgtgagtgggcatcttttactcctggct-atttgattgtttgattttatcttaatggagatgttt---atgtgctttt-ctgcttcacag-----------------------------------------------

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|100390452|gb|BY952860.1|BY952860
EST:     CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG                         AGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGAATCGTTGTCATTAGT
genomic: CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
EST: gi|18337739|gb|BJ169763.1|BJ169763
EST:     CACATGAAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG                         AGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
genomic: CACATG-AAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
EST: gi|37840297|gb|BJ598305.1|BJ598305
EST:     CCACATGGAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG                         AGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
genomic: CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
EST: gi|162264779|gb|FC440346.1|FC440346
EST:     CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG                         AGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
genomic: CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
EST: gi|162209020|gb|FC385572.1|FC385572
EST:     CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG                         AGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
genomic: CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
EST: gi|162209019|gb|FC385571.1|FC385571
EST:     CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG                         AGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
genomic: CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
EST: gi|162264778|gb|FC440345.1|FC440345
EST:     CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG                         AGATGAAATCCCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
genomic: CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
EST: gi|208387224|gb|DC945523.1|DC945523
EST:     CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAG                         AGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
genomic: CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
EST: gi|208358537|gb|DC946498.1|DC946498
EST:     CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCGG                         AGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT
genomic: CCACATGAAACTTATGTGTACTTTATGGACCTTCTTGCCAAGACTGTCAGgtatgataca ... ttgtgcacagAGATGAAATCGCAGGTTGTAGTGAGAAGGCGTACGATTCGTTGTCATTAGT