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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatactcaccttttacatatttatccagctagaactactttgattgtttagagttgtatggaacacattatgcacttcgcgttcttttactcagcgaccgtgaatcattaggtgaattctgtttgctctccgagtgaagtgtcccagagacaagtgaaagtggataacagtcggtgacttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAGTTCCTGCCAACGGATTGGCCGTAATTCCAGAATCCCTGCCTTACTCTGA

Basic information

species Physcomitrella patens
transcript PP1S95_68V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S95_68V6.2 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ12439 (Selaginella moellendorffii), 3'ss of exon 4
gtatactcaccttttacatatttatccagctagaactactttgattgtttagagttgtatggaacacattatgcacttcgcgttcttttactcagcgaccgtgaatcattaggtgaattctgtttgctctccgagtgaagtgtcccagagacaagtgaaagtggataacagtcggtgacttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAGTTCCTGCCAACGGATTGGCCGTAATTCCAGAATCCCTGCCTTACTCTGA
                                                                                                                                 |  ||   ||  |   |   |             |||     | | |   | | |||||||  | ||  |  | |||||||||||||| ||  |||||||||| |||||||||||  |||||| ||| || ||  | ||     | ||||||||||| ||
--------------------------------------------------------------------------------------------------------------------------------gtttgaaaaaatcgcttctttgctctcc------tgattttcttggttttttctcgtgcagGAAAGCCGATTCATATGTACAGCATGGGAGGCATGGCTGAGTATTGTGTAGTTCCCTCCAACGCATTAGCAGTCCTACCTTCTACTCTGCCTTACTCGGA
















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|162269692|gb|FC444884.1|FC444884
EST:     TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTG                         GGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
genomic: TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTGgtatactcac ... ttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
EST: gi|162188954|gb|FC364344.1|FC364344
EST:     TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTG                         GGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
genomic: TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTGgtatactcac ... ttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
EST: gi|162164957|gb|FC342148.1|FC342148
EST:     TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTG                         GGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
genomic: TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTGgtatactcac ... ttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
EST: gi|162267940|gb|FC444021.1|FC444021
EST:     TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTG                         GGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
genomic: TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTGgtatactcac ... ttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
EST: gi|67572828|gb|BJ945652.1|BJ945652
EST:     TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTG                         GGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGA
genomic: TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTGgtatactcac ... ttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGA
EST: gi|162186381|gb|FC362937.1|FC362937
EST:     TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTG                         GGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG
genomic: TTTAGGAGGTCTTTACGATGGCACAACACGATTATACATGTCTAGTAGTGgtatactcac ... ttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaagtgtcccagagacaagtgaaagtggataacagtcggtgacttttgtgcagGGGATCCTGTATACATGTACAGCATGGGTGGTCTGGCTGAGTACTGTGTAGTTCCTGCCAACGGATTGGCCGTAATTCCAGAATCCCTGCCTTACTCTGA
                            ggataac  putative branch site (score: 3)
                                            cttttgt  putative PPT