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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtttttactaatccatcttctgaagctttgaattttggatggcttctgttgcttataccagtaattattgtatgagcttaaattatttggtttttgtacagtttccactgatcaaagttgatattgtttttttcagAGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT

Basic information

species Physcomitrella patens
transcript PP1S10_200V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S10_200V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os04g35700.1 (Oryza sativa), 3'ss of exon 5
gtacgtttttactaatccatcttctgaagctttgaattttggatggcttctgttgcttataccagtaattattgtatgagcttaaattatttggtttttgtacagtttccactgatcaaagttgatattgttttttt---cagAGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT
                                                   || |   | |  |   |   ||||      ||| |||  || | |  |  |     | |  | | ||   || ||  ||||| | |   ||||||||||||||| || ||||| ||||| | | |||| ||    || |||||||||||||| |||||||||||||||
---------------------------------------------------gtagtacagattatccacagttgt-----tttacattcctttggtagtaaaagaaataccttaaccac--ttcatcctgtttctcttcgcagAGATATTAAAGGTGCTAACATACTTGTCGGCCCTAATGGTGAAGTCAAACTTGCTGACTTTGGCATGGCTAAGCAT

upper sequence: PP1S10_200V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: EFJ27940 (Selaginella moellendorffii), 3'ss of exon 3
gtacgtttttactaatccatcttctgaagctttgaattttggatggcttctgttgcttataccagtaattattgtatgagcttaaattatttggtttttgtacagtttccactgatcaaagttgatattgtttttttcagAGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT
                                                                         |||||  | |   | |  |        |   || |  |  |    |  || || || |   |  ||| || || |||||||| |||||||| || |||||||| ||||| |||||||||||||| || |||||||| || || 
-------------------------------------------------------------------------gtatgcccct---tcaactcaccaccatcacgtatttataggc--atattaatcttttgaatgccagGGACATCAAAGGAGCCAACATTCTAGTCGACACTAATGGAATTGTGAAACTTGCTGATTTTGGCATGGCGAAACAC
















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|162169368|gb|FC346258.1|FC346258
EST:     CAGATCCTTTCTGGGTTAGCATACCTGCATAATCAAAATACTGTGCATAG                         AGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACT
genomic: CAGATCCTTTCTGGGTTAGCATACCTGCATAATCAAAATACTGTGCATAGgtacgttttt ... tttttttcagAGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACT
EST: gi|162166784|gb|FC342961.1|FC342961
EST:     CAGATCCTTTCTGGGTTAGCATACCTGCATAATCAAAATACTGTGCATAG                         AGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACT
genomic: CAGATCCTTTCTGGGTTAGCATACCTGCATAATCAAAATACTGTGCATAGgtacgttttt ... tttttttcagAGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatttggtttttgtacagtttccactgatcaaagttgatattgtttttttcagAGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT
                                          ttgtttttttc  CT-rich tract
                                    ttgatattgttttttt  TA-rich tract