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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCAAGATTCATCAATTGGTTTTGGAGCACCTGTTCGTGCCAATATGCGAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgtacctcacatctttaataatagtactcttttcctttgtaatttaatttaaaagtggcttttaaattggacccgtccccctcgagcattttttcatgcct...

Basic information

species Physcomitrella patens
transcript PP1S98_222V6.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S98_222V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA16G33080.1 (Glycine max), 5'ss of exon 11
GAAGCAAGATTCATCAATTGGTTTTGGAGCACCTGTTCGTGCCAATATGCGAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgtacctcacatctttaata-atagtactcttttcctttgtaatttaatttaaaagtggcttt-taaattggacccgtccccctcgagcattttttcatgcct
    |||||||| || ||||||||||||||||| ||||||||||||||| |||       | | |  ||  | ||  | || |||||||| |||||| | ||   |    ||| | | |   | || |  | |||||| |   | | | |||   | | |   || || |   | ||   ||        || |  ||    
ACGACAAGATTCTTCTATTGGTTTTGGAGCACCAGTTCGTGCCAATATGAGAGCTGGTGGAATAACAGATTCTGCAGTAACATCATCTTTACTTGAGTCAgtgagtgttgtctcttacatgaaatattaatctcctttttttataattgtaaggctagatagatagatggatactgtaagccattgaagcttgtaaataa--

upper sequence: PP1S98_222V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA10G32040.1 (Glycine max), 5'ss of exon 8
GAAGCAAGATTCATCAATTGGTTTTGGAGCACCTGTTCGTGCCAATATGCGAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgt---acctcac-atctttaat--aatagtactctttt----cctttgtaatttaatttaaaagtggcttttaaattggacccgtccccctcgagcattttttcatgcct
    |||||||| ||||||||||||||||||||||| ||| |||||||| |||       | | |   | || ||  | || |||||||| |||||| ||||   |  |||| ||  |||    | ||  ||| ||||    || ||    |  || || | ||  |    ||  |||  |   |   |||     ||| |         
ACGACAAGATTCTTCAATTGGTTTTGGAGCACCTGTCCGTTCCAATATGAGAGCTGGTGGAATTACAAATGCTGCAGTCACATCATCTTTACTTGAGTCGgtgagaattcactatgattatctgactaaaacttttttattccccttcctgtaaaacttgatag--gtagatactttgagcaattaaacctaataaattgtg--------

upper sequence: PP1S98_222V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA20G35600.1 (Glycine max), 5'ss of exon 10
GAAGCAAGATTCATCAATTGGTTTTGGAGCACCTGTTCGTGCCAATATGCGAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgtacctcacatctttaataat---agtactcttttcctttgtaatttaatttaaaagtggcttttaaattggacccgtccccctcgagc-attttttcatgcct
    |||||||| ||||||||||||||| |||| || ||| |||||||| ||        | | |   | || ||  | || |||||||| |||||| ||||       | || | ||  |   | ||    |||  | |     ||  | ||||| | | |    |  |      || |   |  | | | |   |||||   
ACGACAAGATTCTTCAATTGGTTTTGGATCACCAGTCCGTTCCAATATGAGAACTGGTGGAGTTACAAATGCTGCAGTCACATCATCTTTACTTGAGTCGgtgagaattaactatgattgtctgactaaaacttttttattctccttcctgtaaaactagataggtagatac-tttgtgcaattaaacctaataaatcatg---

upper sequence: PP1S98_222V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 11
GAAGCAAGATTCATCAATTGGTTTTGGAGCACCTGTTCGTGCCAATATGCGAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgtac-------ctcacatctttaataatagtactcttttcctttgtaatt-taatttaaaagtggcttttaaattggacccgtccccc-tcgagcattttttcatgcct
    |||||||| || |||||||||||||| || |||||||| |||||| |||       | | |  ||  | ||  | || |||||||| |||||| | ||         |||  ||  |    |||| || |||  |  ||| ||||| |||    | |  |     || || |   | ||   |  | ||  ||| |         
ACGACAAGATTCTTCTATTGGTTTTGGAGCCCCAGTTCGTGCAAATATGAGAGCTGTTGGAATAACAGATTCTGCAGTAACATCATCTTTACTTGAGTCAgtgagtgttggctcttattatctgaaatattaatctccttttttataattgtaaggccagatagatagatagatggatactgtaagcaattgaagattgt---------

upper sequence: PP1S98_222V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: AT1G33360.1 (Arabidopsis thaliana), 5'ss of exon 10
GAAGCAAGATTCATCAATTGGTTTTGGAGCACCTGTTCGTGCCAATATGCGAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgt----acctcacatctttaataatagtactcttttcctttgtaatttaatttaaaagtggcttttaaattggacccgtccccctcgagcattttttcatgcct
    ||||| |||||||||||||||||||| |||||||||||||| |||      |    | ||| |   |  || || |||||||||||||| ||  ||||    ||  || |  |||  |||   || | |   |  || | |||     |  ||   | | |||  || |    | |  |     ||||||          
ACGACAAGACTCATCAATTGGTTTTGGAGCTCCTGTTCGTGCCAACATGGCTACCAGTGGAGTGACCAGTGGTGCAATAACTTCATCTTTGCTAGAATCGgtaaacactacatagttttgttaagcctagtgtaaacacttctcattc---ctggaaagagatcttagttttggaatgccggct----gcatttcag-------

upper sequence: PP1S98_222V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: Vv18s0089g01240.t01 (Vitis vinifera), 5'ss of exon 10
GAAGCAAGATTCATCAATTGGTTTTGGAGCACCTGTTCGTGCCAATATGCGAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgtacctcacatctttaataatagtactcttttcctttgtaattt--aatttaaaagtggcttttaaattggacccgtccccctcgagcattttttcatgcct-
   ||||||||| ||||||||||||||||||||||||||||| || ||| ||          | | | | || |   | || ||||| || || ||  ||||     | |    |||   |   | |  |      || |||||  || ||| |  |    |||         ||  |     |   |      | |  |   
ACGGCAAGATTCTTCAATTGGTTTTGGAGCACCTGTTCGTGCTAACATGAGAACTGGTGGGTTAACCAATGCTGTGGTGACATCATCCTTACTAGAATCGgtgaggaaaac---taaccttcagatttatagaaactggaatttagaacttacacattttctttgttgatagtccaccttggccagaccaacaatgaaactag

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|162179889|gb|FC355960.1|FC355960
EST:     GAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACG                         GTAGAGAGCAGAGATTTGATCTCTTATGGGTTGATTCCTGAATTCATCGGA
genomic: GAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgtacctcaca ... attcgtgcagGTAGAGAGCAGTGATTTGATCTCTTATGGGTTGATTCCTGAATTCATCGGA
EST: gi|162247501|gb|FC425067.1|FC425067
EST:     GAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACG                         GTAGAGAGCAGAGATTTGATCTCTT
genomic: GAGGAAACAAACTGATCGACGCCGCCATTACTTCATCTTTGCTTGAGACGgtacctcaca ... attcgtgcagGTAGAGAGCAGTGATTTGATCTCTT
EST: gi|162179888|gb|FC355959.1|FC355959
EST:     CCATTACTTCATCTTTGCTTGAGACG                         GTAGAGAGCAGAGATTTGATCTCTTATGGGTTGATTCCTGAATTCATCGGA
genomic: CCATTACTTCATCTTTGCTTGAGACGgtacctcaca ... attcgtgcagGTAGAGAGCAGTGATTTGATCTCTTATGGGTTGATTCCTGAATTCATCGGA