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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgatgtgctaacatccactgtgctttctatgggtaccgatttgaatggaaaggcgaaggccttgaaaatgagaaagttctttttaattttactagtgcaatcatatgcttgttcgtgatcctggcagctgtcataattttgaattgaaggacctatgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAG

Basic information

species Physcomitrella patens
transcript PP1S86_26V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S86_26V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 7
gtccgatgtgctaacatccactgtgctttctatgggtaccgatttgaatggaaaggcgaaggccttgaaaatgagaaagttctttttaattttactagtgcaatcatatgcttgttcgtgatcctggcagctgtcataattttgaattgaaggacctatgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAG
                                                         |     | || | ||     | || | ||  |    |   ||  |||  | |  |  | |  ||  |   |||     |  |||||||             | ||||| |||||  |  | || || ||||||   || || || ||  |  | ||||| || |||||||||||||||||||||||| | ||| |||| |||   |
---------------------------------------------------------gtttctcctgcagatttatgatttgtattccaaaagat--gttgaattttgtattcatcctagacac--acagtgtctactattttga-------------tccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

upper sequence: PP1S86_26V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 5
gtccgatgtgctaacatccactgtgctttctatgggtaccgatttgaatggaaaggcgaaggccttgaaaatgagaaagttctttt-taattttactagtgcaatcatatgcttgttcgtgatcctggcagctgtcataattttgaattgaaggacct--atgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAG
                                                                               ||||| |  |  ||||  | |   ||   ||    |||  |||   | | |    || ||         |  |  |  |  || ||||| |||||  |  | || || ||||||   || || || ||  |  | ||||| || |||||||||||||||||||||||| | ||| |||| |||   |
-----------------------------------------------------------------------------gtttcttctgcagatttatgatttttattccataa--gttgttgaattttgtattcatcctagacacattgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

upper sequence: PP1S86_26V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G052277_T01 (Zea mays), 3'ss of exon 7
gtccgatgtgctaacatccactgtgctttctatgggtaccgatttgaatggaaaggcgaaggccttgaaaatgagaaagttctttttaattttactagtgcaatcatatgcttgttcgtgatcctggcagctgtcataattttgaattgaaggacctatgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAG
                                                               ||||| | | |  |  ||||||        | | ||  |||  | |  || ||   ||  |  |   |||| |   ||||||             | ||||| |||||  |  | ||||| ||||||   || || || ||  |  | ||||| || |||||||||||||||||||||||| | ||| |||| |||   |
-----------------------------------------------------------gtttcttgagatttatga--ttctttacttcaaaagttgttgaattttgtatttattttagacac-agtgtctgttactgttttga-------------tccagGTAATGACTGCACACCCTGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

upper sequence: PP1S86_26V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G177485_T01 (Zea mays), 3'ss of exon 2
gtccgatgtgctaacatccactgtgctttctatgggtaccgatttgaatggaaaggcgaaggccttgaaaatgagaaagttctttt-taattttactagtgcaatcatatgcttgttcgtgatcctggcagctgtcataattttgaattgaaggacct--atgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAG
                                                                               ||||| |  |  ||||  | |   ||   ||    |||  |||   | | |    || ||      |  |  |  |  |  || ||||| |||||  |  | || || ||||||   || || || ||  |  | ||||| || |||||||||||||||||||||||| | ||| |||| |||   |
-----------------------------------------------------------------------------gtttcttctgcagatttatgatttttattccataa--gttgttgaattttgtattcatcctagacacaatgtctactattttcatccagGTAATGACTGCACACCCCGATTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

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|100385026|gb|BY987489.1|BY987489
EST:     TGAGAGTTGTTGCTCAAGGCTTACATCCTGAGACGACCACTTTGGATAAG                         GTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGAT
genomic: TGAGAGTTGTTGCTCAAGGCTTACATCCTGAGACGACCACTTTGGATAAGgtccgatgtg ... acctatgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttgttcgtgatcctggcagctgtcataattttgaattgaaggacctatgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAG
                           ataattttgaattgaa  TA-rich tract