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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAAACAAGTATTATCACGCGATTCATGTATGATAAATTTGACAACACTTACCAGgttggcttctctttttgattttcttccccaggatacgtcacactgtacgtgtaattatccgacgttcttttaacattttggagatactatgcattctgag...

Basic information

species Physcomitrella patens
transcript PP1S2_143V6.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S2_143V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA01G41090.1 (Glycine max), 5'ss of exon 1
--------------------------------------------GCAAAACAAGTATTATCACGCGATTCATGTATGATAAATTTGACAACACTTACCAGgttggcttctctttttgattttcttccccaggatacgtcacactgtacgtgtaattatccgacgttcttttaacattttgg-agatactatgcattctgag-----
                                            | ||||| || || ||||| || ||||||||||| ||||||||||||||||| |||||  | |    |     || | |  || |    || ||  || |||   |    | ||| |         ||| ||   |  | || ||   | | || |      
TCTTGCAAAGTACAAGCTGGTGTTCTTGGGTGATCAGTCTGTGGGAAAAACTAGCATCATCACTCGCTTCATGTATGACAAATTTGACAACACTTATCAGgtctgatcagatccactatct-cagccactttttaagtttcaatgtgtttcctttgatcagggaaa----taaaatgacgacaaatgctgcac-tgctaaccatta

upper sequence: PP1S2_143V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT2G44610.1 (Arabidopsis thaliana), 5'ss of exon 1
--------------------------------------------GCAAAACAAGTATTATCACGCGATTCATGTATGATAAATTTGACAACACTTACCAGgttggcttctctttttgattttcttccccaggatacgtcacactgtacgtgtaattatccgacgttcttttaacattttggagatactatgcattctgag
                                            ||||||| ||||| || || ||||||||||| || ||||| |||||||||||||||||    |||  || || |  |            |     |  |   |||| |  || |     |     |||   |   | | || | | |  ||    |
ACTCGCTAAGTATAAGCTGGTGTTTCTGGGAGATCAATCCGTCGGCAAAACCAGTATCATTACTCGATTCATGTACGACAAATTCGACAACACTTACCAGgtaaatttccattgttcaaatctaggtattatctcgacgatgcacgacgtttgcttctattttgagggattatagtcgggaaaatcccagggtttgattg

upper sequence: PP1S2_143V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ30542 (Selaginella moellendorffii), 5'ss of exon 1
GCAAAACAAGTATTATCACGCGATTCATGTATGATAAATTTGACAACACTTACCAGgttggcttctctttttgattttcttccccaggatacgtcacactgtacgtgtaattatccgacgttcttttaacattttggagatactatgcattctgag-
||     |||||  | | ||   |||  |   ||| | | ||     |   || ||  |     | |  ||    | |  |      || |   || ||      ||  ||||   |    |  | |  || |||||  | | |    ||| | |  
GCTTGCAAAGTACAAGCTCGTCTTTCTCG-GCGATCAGTCTGTGGGGAAG-ACGAGCATCATCACGCGATTCATGTATGATAAGTTTGACAACACATACCAGgtatgagattacgagtttcttctctctcactttggcaa-attggaaattttcaag

upper sequence: PP1S2_143V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ22994 (Selaginella moellendorffii), 5'ss of exon 1
GCAAAACAAGTATTATCACGCGATTCATGTATGATAAATTTGACAACACTTACCAGgttggcttctctttttgattttcttccccaggatacgtcacactgtacgtgtaattatccgacgttcttttaacattttggagatactatgcattctgag
||     |||||  | | ||   |||  |   ||| | | ||     |   || ||  |     | |  ||    | |  |      || |   || ||      ||  ||||  |||  ||||| |  || |||||  |         ||   ||
GCTTGCGAAGTACAAGCTCGTCTTTCTCG-GCGATCAGTCTGTGGGGAAG-ACGAGCATCATCACGCGATTCATGTATGATAAGTTTGACAACACATACCAGgtatgagatta--cgagtttcttctctcactttggcaaattggaatttttcaag

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|100403885|gb|BY955150.1|BY955150
EST:     AGTATTATCACGCGATTCATGTATGATAAATTTNGACA-CACTTNAC-AN                         GCAACCATCGGTATCGATTTTCTCTCCAAGACAATGTATCTTGAAGAACG
genomic: AGTATTATCACGCGATTCATGTATGATAAATTT-GACAACACTT-ACCAGgttggcttct ... aatttggcagGCAACCATCGGTATCGATTTTCTCTCCAAGACAATGTATCTTGAAGACCG