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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agagcaggtcaaatttgcatttaaccagtactttagacatgtcaaattctgtataaagttcaaattggatcaatttcttaggttgtggtgtttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGACCTTTTTTGTCCTGTTCAAGGGGCGATAATGATTACAG

Basic information

species Physcomitrella patens
transcript PP1S152_87V6.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S152_87V6.2 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA10G35490.1 (Glycine max), 3'ss of exon 5
----agagcaggtcaaatttgcatttaaccagtactttagacatgtcaaatt--ctgtataaagttcaaattggatcaat-ttcttaggttgtggtgtttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGACCTTTTTTGTCCTGTTCAAGGGGCGATAATGATTACAG
      ||||  |  ||||| |||   |    |||||   |  | | |   |  | || |  | | |  | || || |||  | ||  ||||     |||| |   |  | |||||||||||||| ||||||||||||||  | ||       || |   |||| ||||||| | | ||  | || ||||| ||||
gttttcagcatatgtaattt-catc--atggatacttagtat-tattaccctaacggttttcactgcctaatgtattaatactgttgtgttgattcatttcta---gATTAGCATCAACACCAGCCATGTTCAATAGCACACTCACGAAGAATGAAGCATTTTTGTGTCCTGCTGATGGATCTATTATGATAACAG

upper sequence: PP1S152_87V6.2 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 4
-----agagcaggtcaaatttgcatttaaccagtactttagacatgtcaaattctgtataaagttcaaattggatcaat-ttcttaggttgtggtgtttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGACCTTTTTTGTCCTGTTCAAGGGGCGATAATGATTACAG
       |  ||   || ||     |  |    || | |    |    ||   | || |  | | |  | || || |||  | ||  ||||     |||| |   |  | |||||||||||||| ||||||||||||||  | |||      || |   |||| ||||||| | | ||  | || ||||| ||||
taatttcattagacaaatttcatcatggatacttagtattattaccctaa---cggttttcactacctaatgtattaatactgttgtgttgattcatttcta---gATTAGCATCAACACCAGCCATGTTCAATAGCACACTCACAAAGAATGAAGCATTTTTGTGTCCTGCTGATGGATCTATTATGATAACAG
















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|162196622|gb|FC374912.1|FC374912
EST:     GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGG                         TATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
genomic: GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGGgtatgtttat ... tttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
EST: gi|162244981|gb|FC424939.1|FC424939
EST:     GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGG                         TATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
genomic: GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGGgtatgtttat ... tttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
EST: gi|100352594|gb|BY945350.1|BY945350
EST:     GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGG                         TATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
genomic: GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGGgtatgtttat ... tttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
EST: gi|100419828|gb|BY957728.1|BY957728
EST:     GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGG                         TATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
genomic: GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGGgtatgtttat ... tttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
EST: gi|162159476|gb|FC336265.1|FC336265
EST:     GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGG                         TATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
genomic: GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGGgtatgtttat ... tttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
EST: gi|100397210|gb|BY972385.1|BY972385
EST:     GCCGTAGCTCGAGAAATATCTGGAGCTGGATTGGATGTCATTGAATATGG                         TATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA
genomic: GCCGTAGCTCGAGGAATATCTGGAGCTGGATTGGATGTCATTGAATATGGgtatgtttat ... tttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctgtataaagttcaaattggatcaatttcttaggttgtggtgtttccaacagTATGGCATCAACACCAGCGATGTTCAATAGCACCTTAACAGTTCGAGACGACCTTTTTTGTCCTGTTCAAGGGGCGATAATGATTACAG
                                           tgtttcc  CT-rich tract
      tataaagttcaaatt  TA-rich tract