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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAGGACACGAAGGGAGTTGGAAAAGGCTAATACTGTGGTATCGAGGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAGgtaaatctaataatatcaatgctgcccagatcagtaaccagtttctgagaatttccagcgttttgtgacgattgcgttcacatatagtaactgtatatag...

Basic information

species Physcomitrella patens
transcript PP1S425_2V6.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S425_2V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 5'ss of exon 3
CAAAGG--ACACGAAGGGAGTTGGAAAAGGCTAATACTGTGGTATCGAGGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAGgtaaatctaataatatcaatgctgcccagatcagtaaccagtttctgagaatttccagcgttttgtgacgattgcgttcacatatagtaactgtatatag
 || |     |  || |  | ||  ||||   | || |  | || | ||||||||||||| ||| |||  ||||||||||||||| ||||| || |||||| ||   | || |  ||  ||||  ||   |||| || ||       ||||||    ||||    |   |||  ||  |||    | |          
-AATGCCTGTAGAAAAGAGGCTGAGAAAGTTGATTATTCCGTTAGC-AGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCATGAACCAGAGgtatattgtacaagactaa--ctgcttagtgaagta-cctgt-------aatttctgttgtttaacta-atttgtcttgtcatgcgattag---------

upper sequence: PP1S425_2V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
CAAAGGACACGAAGGGAGTTGGAAAAGGCTAATACTGTGGTATCGAGGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAGgtaaatctaataatatcaatgctgcccagatcagtaaccagtttctgagaatttccagcgttttgtgacgattgcgttcacatatagtaactgtatatag
||     |  |||  ||    || || ||| ||  |    |    ||||||||||| | ||| |||  ||||||||||||||| |||||||| |||||| ||           |    ||   ||     | |   || | |  ||||| |  |   ||||  |   |   |||   ||  | ||           
CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattct----cgcaagcattgtttagtggtattatttgtct-tatgaattacttgaaatttgacaaagtgatgttattattgaatag----------
















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|162150295|gb|FC326380.1|FC326380
EST:     GGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAG                         TTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGA
genomic: GGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAGgtaaatctaa ... ttctttgcagTTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGA
EST: gi|100389123|gb|BY952327.1|BY952327
EST:     GGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAG                         TTTGATTACTTAAAGAGTT
genomic: GGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAGgtaaatctaa ... ttctttgcagTTTGATTACTTAAAGAGTT
EST: gi|162255330|gb|FC432056.1|FC432056
EST:     GGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAG                         TTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGA
genomic: GGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAGgtaaatctaa ... ttctttgcagTTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGA
EST: gi|100386449|gb|BY951245.1|BY951245
EST:     GGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAG                         TTT-ATTACTTTAAGAGTTTGGAAATA
genomic: GGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAGgtaaatctaa ... ttctttgcagTTTGATTACTTAAAGAGTTTGGAAATA