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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtattatttaatagtttctggtactgttgacagtaggtgggctctctctctctctctcacatacacactttgctgttgcgtaaagtgcctactttggtatgcatactagtaacatttttgtgtcaagttttaggttttaattgcacattccttcttctgcagGTCGCTGATTTTGGACTGGCAAAGCTGGCATCAGACACACACACTCACGTTTCAACTCGCGTGATGGGAACATTTGGGTACCTCGCTCCAGAATACGCCC

Basic information

species Physcomitrella patens
transcript PP1S134_145V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S134_145V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA07G00680.1 (Glycine max), 3'ss of exon 4
gttagtgtattatttaatagtttctggtactgttgacagtaggtgggctctctctctctctctcacatacacactttgctgttgcgtaaagtgcctactttggtatgcatactagtaacatttttgtgtcaagttttaggttttaattgcacattcc-----ttcttctgcagGTCGCTGATTTTGGACTGGCAAAGCTGGCATCAGACACACACACTCACGTTTCAACTCGCGTGATGGGAACATTTGGGTACCTCGCTCCAGAATACGCCC
                                                                   || | |   |||| |||   ||| ||   |  ||   ||  |      ||| || | | |  ||   | ||  |  |||    |  || |      | || | |||||||| ||||||||||| |||||  |  ||||||||||| |||| || ||||| || || ||||||||||| |||||                       
-------------------------------------------------------------------taaaaa---tgctattg---aaattgttcatcttcacatttagcactctaatatctatttaacattgtctacataataaaataatgtttcagaatcttttgttcagGTCGCAGATTTTGGACTTGCAAAATTTTCATCAGACACAGACACCCATGTTTCTACCCGAGTGATGGGAACTTTTGG-----------------------
















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|162207929|gb|FC383635.1|FC383635
EST:     GGGACATTAAATCTTCTAACATACTACTAGATGACAAATATGAGGCTCAG                         GTCGCTGATTTTGGACTGGCAAAGCTGGCATCAGACACACACACTCACGTT
genomic: GGGACATTAAATCTTCTAACATACTACTAGATGACAAATATGAGGCTCAGgttagtgtat ... tcttctgcagGTCGCTGATTTTGGACTGGCAAAGCTGGCATCAGACACACACACTCACGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaacatttttgtgtcaagttttaggttttaattgcacattccttcttctgcagGTCGCTGATTTTGGACTGGCAAAGCTGGCATCAGACACACACACTCACGTTTCAACTCGCGTGATGGGAACATTTGGGTACCTCGCTCCAGAATACGCCC
                                    cacattccttcttct  CT-rich tract
                    ttttaggttttaatt  TA-rich tract