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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgacagtgattttggacgatgctctgccagaaaatatggcaagcattaatatgtggaattactcatcaaccgtataatggatattgtgatgaggacagGGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAAGTACGAAGGTGTCAGTCCAGCAGGCTCTCACAAGCCTAACACAGCAATC

Basic information

species Physcomitrella patens
transcript PP1S48_37V6.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S48_37V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ24275 (Selaginella moellendorffii), 3'ss of exon 1
tttgacagtgattttggacgatgctctgccagaaaatatggcaagcattaatatgtggaattactcatcaaccgtataatggatattgtgatg-aggacagGGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAAGTACGAAGGTGTCAGTCCAGCAGGCTCTCACAAGCCTAACACAGCAATC
                                        |   |  ||  | |  | |     || |  | ||  || | | || ||| ||| | | ||||||   | |||| |||   ||  | || || || ||| |||| |||||||||||||| ||||| |||||||| || || |||||||| ||||| ||  ||
----------------------------------------gtttgagtt--ttttcgaagcctttccttcatcgcttagttg-tactgttatgcatgccagGGCCAAGCGACTAGAACGGTTGCTAGAAACTCCTGCAAGGATTTACTACAAGTACGAGGGTGTGAGTCCAGCGGGATCACACAAGCCGAACACGGCCGTC

upper sequence: PP1S48_37V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ35538 (Selaginella moellendorffii), 3'ss of exon 1
tttgacagtgattttggacgatgctctgccagaaaatatggcaagcattaatatgtggaattactcatcaaccgtataatggatattgtgatg-aggacagGGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAAGTACGAAGGTGTCAGTCCAGCAGGCTCTCACAAGCCTAACACAGCAATC
                                        |   |  ||  | | || |     |  |  | ||  || | | || ||| ||| | | ||||||   | |||| |||   ||  | || || || ||| |||| |||||||||||||| ||||| |||||||| || || |||||||| ||||| ||  ||
----------------------------------------gtttgagtt--tttttgaagccttttcttcatcgcttagttg-tactgttatgcatgccagGGCCAAGCGACTAGAACGGTTGCTAGAAACTCCTGCAAGGATATACTACAAGTACGAGGGTGTGAGTCCAGCGGGATCACACAAGCCGAACACGGCCGTC
















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|162198036|gb|FC372063.1|FC372063
EST:     CCGAGCCCTCTGTACAG                         GGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAA
genomic: CCGAGCCCTCTGTACAGgtgcgataat ... atgaggacagGGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAA
EST: gi|162187056|gb|FC362838.1|FC362838
EST:     GATGAGGTTCTTCAAGTGTACAAGCTCTGGCGCCCGAGCCCTCTGTACAG                         GGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAA
genomic: GATGAGGTTCTTCAAGTGTACAAGCTCTGGCGCCCGAGCCCTCTGTACAGgtgcgataat ... atgaggacagGGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAA
EST: gi|100355506|gb|BY945968.1|BY945968
EST:     GATGAGGTTCTTCAAGTGTACAAGCTCTGGCGCCCGAGCCCTCTGTACAG                         GGCTTGGAGACTTGAAAA-TTATTGGATACACCAGCACGGATCTACTACNA
genomic: GATGAGGTTCTTCAAGTGTACAAGCTCTGGCGCCCGAGCCCTCTGTACAGgtgcgataat ... atgaggacagGGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAA
EST: gi|100383718|gb|BY969247.1|BY969247
EST:     GATGAGGTTCTTCAAGTGTACAAGCTCTGGCGCCCGAGCCCTCTGTACAG                         GGCTTGGAGACTTGNAAAAAT-ATTGGATACACCAGCACGGATCTACTACN
genomic: GATGAGGTTCTTCAAGTGTACAAGCTCTGGCGCCCGAGCCCTCTGTACAGgtgcgataat ... atgaggacagGGCTTGGAGACTTG-AAAAATTATTGGATACACCAGCACGGATCTACTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattaatatgtggaattactcatcaaccgtataatggatattgtgatgaggacagGGCTTGGAGACTTGAAAAATTATTGGATACACCAGCACGGATCTACTACAAGTACGAAGGTGTCAGTCCAGCAGGCTCTCACAAGCCTAACACAGCAATC
 cattaat  putative branch site (score: 3)
                             tataat  TA-rich tract