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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtatttatcctgatgggtgtttgatcataggattttgatgacaatgattggccttcatataatatggtagtgttgtgtggaaagctttacttgagcatctgttggtggaatgttgtgttagttacaatcgcaccgagttttgtgtaaccttcgtgattctgttgtgtgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTTGGTTGCTCCTGAG

Basic information

species Physcomitrella patens
transcript PP1S165_107V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S165_107V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G047855_T01 (Zea mays), 3'ss of exon 7
gttagtatttatcctgatgggtgtttgatcataggattttgatgacaatgattggccttcatataatatggtagtgttgtgtggaaagctttacttgagcatctgttggtggaatgttgtgttagttacaatcgcaccgagttttgtgtaaccttcgtgattctgttgtgtgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTTGGTTGCTCCTGAG
                                                                                                  | |  | |   ||   || | |||| | | |  |      ||    | | |||||||      ||   | | |    ||||| |||||||| || ||||||||||||||| | ||| |||| ||||||||| | ||  | ||||||
--------------------------------------------------------------------------------------------------gtaaatttccatgttttgatatgttggatccttttatttagacgaat-tataacctt------tcatgtatatcatatgcagGCATAGTAGAAAACCCTGGTCAAAGTTCATGAATGCTGATAACCAACATCTAGTATCACCTGAG
















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|162271756|gb|FC448889.1|FC448889
EST:     ATTGGATCCCCATCTCGAGGCGTTGGTTGGAAG                         ACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
genomic: ATTGGATCCCCATCTCGAGGCGTTGGTTGGAAGgttagtattt ... tgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
EST: gi|162240845|gb|FC417516.1|FC417516
EST:     AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAG                         ACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
genomic: AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAGgttagtattt ... tgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
EST: gi|162255256|gb|FC431566.1|FC431566
EST:     AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAG                         ACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
genomic: AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAGgttagtattt ... tgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
EST: gi|37834022|gb|BJ592034.1|BJ592034
EST:     AACGAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAG                         ACATAGTAGGAAGCCCTGGTCAAAGTTNTTAAATTNTGACAACCAACATTT
genomic: AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAGgttagtattt ... tgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
EST: gi|37829629|gb|BJ587641.1|BJ587641
EST:     AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAG                         ACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAGCATTT
genomic: AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAGgttagtattt ... tgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
EST: gi|162240846|gb|FC417517.1|FC417517
EST:     AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAG                         ACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT
genomic: AACAAGTACCGGTTGGAATTGGATCCCCATCTCGAGGCGTTGGTTGGAAGgttagtattt ... tgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacaatcgcaccgagttttgtgtaaccttcgtgattctgttgtgtgcgttgcagACATAGTAGGAAGCCCTGGTCAAAGTTCTTAAATTCTGACAACCAACATTTGGTTGCTCCTGAG
                    gtgtaac  putative branch site (score: 3)