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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctcatgtgaacttgatcttgcttgatactttaatcaaacatgttgagttttcgcatgaaccacatctaacataagcgtattgatttcttttaatgtagGCTGATCCCCAGAACACGAGCGTGAATTATGACAAAGAATTTATAGTTTGTTCTTTAGATTTGCTATCAGGTCTTGCAGAAGGCCTTGGCAGCAGCATTG

Basic information

species Physcomitrella patens
transcript PP1S15_486V6.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S15_486V6.1 (Physcomitrella patens), 3'ss of exon 20
lower sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 19
tgctcatgtgaa---cttgatcttgcttgatactttaatcaaacatgttgagttttcgcatgaaccacatctaacataagcgtat-tgatttcttttaatgtagGCTGATCCCCAGAACACGAGCGTGAATTATGACAAAGAATTTATAGTTTGTTCTTTAGATTTGCTATCAGGTCTTGCAGAAGGCCTTGGCAGCAGCATTG
    |||| |     ||  |  ||  || | |     || |||  | |||    | | | |       |  |  | |    | |  |   | || | | || ||| |||||| | |    |    ||  | ||||| |||||||| || ||||| ||||| || ||||| ||||| ||||||||||| ||||| ||  | ||||
---ccatgagcgttgctgaagattttttcacatcaagataaaat-tcttgtccatgctcttatcttttagtttgcttgcctgaaggttggtgctataattgcagGTTGATCCTCTGTCAGCTGCTGTTCAATATGATAAAGAATTCATTGTTTGCTCTTTGGACTTGCTCTCAGGGCTTGCAGAAGGTCTTGGTAGTGGAATTG
















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|162193239|gb|FC369453.1|FC369453
EST:     CTGTCTTTATGAGATGCATCAATTTGATTCGTATACATCAAGTTGCTAAG                         GCTGATCCCCAGAACACGAGCGTGAATTATGACAAAGAATTTATAGTTTGT
genomic: CTGTCTTTATGAGATGCATCAATTTGATTCGTATACATCAAGTTGCTAAGgtattaacga ... tttaatgtagGCTGATCCCCAGAACACGAGCGTGAATTATGACAAAGAATTTATAGTTTGT
EST: gi|162178197|gb|FC354915.1|FC354915
EST:     CTGTCTTTATGAGATGCATCAATTTGATTCGTATACATCAAGTTGCTAAG                         GCTGATCCCCAGAACACGAGCGTGAATTATGACAAAGAATTTATAGTTTGT
genomic: CTGTCTTTATGAGATGCATCAATTTGATTCGTATACATCAAGTTGCTAAGgtattaacga ... tttaatgtagGCTGATCCCCAGAACACGAGCGTGAATTATGACAAAGAATTTATAGTTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagttttcgcatgaaccacatctaacataagcgtattgatttcttttaatgtagGCTGATCCCCAGAACACGAGCGTGAATTATGACAAAGAATTTATAGTTTGTTCTTTAGATTTGCTATCAGGTCTTGCAGAAGGCCTTGGCAGCAGCATTG
                                        tttctttt  CT-rich tract
                                  tattgatttcttttaa  TA-rich tract