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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgatacaaacctttcacggcttttaattttcaccatgaagtgtgacacatcttaatgccatcattcttcctggtgtgtgggtgacatgtccaggtctaatcacatggttgcgaactttgcagTTGGAGGACAGGTTGTATATATATTTAGAGTATGTTTCAGGTGGGTCAATCCATAAACTACTCCAAGAGTACGGTGCTTTCAAAGAGCCTGTCGTACGCA

Basic information

species Physcomitrella patens
transcript PP1S10_200V6.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 6
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 3'ss of exon 5
gtacgatacaaacctttcacggcttttaattttcaccatgaagtgtgacacatcttaatgccatcattcttcctggtgtgtgggtgacatgtccaggtctaatcacatggttgcgaactttgcagTTGGAGGACAGGTTGTATATATATTTAGAGTATGTTTCAGGTGGGTCAATCCATAAACTACTCCAAGAGTACGGTGCTTTCAAAGAGCCTGTCGTACGCA
                 |||    |  |   ||    | ||| |         |||     | | | || ||   || |       | ||  | |      ||| |||   | | ||     ||| | || || |   | ||||||||  | ||||||||||| ||||| || ||||||||||||||||| ||||| ||    ||    || ||||   | ||||
----------------ccacattctgcagaattt--tacgaacttcacttttgcttgcactcctgactcctct--gtttactttaaaaataactatacactatc-catttattcaaa----acagGTTGATGATAAACTTTATATATACCTGGAGTATGTTTCTGGTGGATCCATCCATAAACTACTCCAGGAGTATGGGCAATTTGGTGAACCTGCTATCCGCA
















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:     TGAGTAAATTGAGACATGAGAACATTGTACAGTACATTGGCACCGAAACG                         TTGGAGGACAGGTTGTATATATATTTAGAGTATGTTTCAGGTGGGTCAATC
genomic: TGAGTAAATTGAGACATGAGAACATTGTACAGTACATTGGCACCGAAACGgtacgataca ... aactttgcagTTGGAGGACAGGTTGTATATATATTTAGAGTATGTTTCAGGTGGGTCAATC
EST: gi|162166784|gb|FC342961.1|FC342961
EST:     TGAGTAAATTGAGACATGAGAACATTGTACAGTACATTGGCACCGAAACG                         TTGGAGGACAGGTTGTATATATATTTAGAGTATGTTTCAGGTGGGTCAATC
genomic: TGAGTAAATTGAGACATGAGAACATTGTACAGTACATTGGCACCGAAACGgtacgataca ... aactttgcagTTGGAGGACAGGTTGTATATATATTTAGAGTATGTTTCAGGTGGGTCAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctggtgtgtgggtgacatgtccaggtctaatcacatggttgcgaactttgcagTTGGAGGACAGGTTGTATATATATTTAGAGTATGTTTCAGGTGGGTCAATCCATAAACTACTCCAAGAGTACGGTGCTTTCAAAGAGCCTGTCGTACGCA
                          gtctaat  putative branch site (score: 3)