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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttattaataataaaaatactcgtgttattataacatttgtgtagatgatgaggtcgttcatgccatccttctgttgtgattaatgatggcatgtatgcagGTCTTCACTACAGCAGCTACAGACGAGCATAAGTCCATTGTTCTGCTCGCATTTGAGACAATTGAAAAAATTGTTCGTGAGTATTTCCCTTACATAACCG

Basic information

species Physcomitrella patens
transcript PP1S264_74V6.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S264_74V6.1 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GRMZM2G365185_T01 (Zea mays), 3'ss of exon 8
-------------------------------------ttat-taataataaaaatactcgtgttattataacatttgtgtagatgatgaggtcgttcatgccatccttctgttg-tgatt-aatgatggca----------tgtatgcagGTCTTCACTACAGCAGCTACAGACGAGCATAAGTCCATTGTTCTGCTCGCATTTGAGACAATTGAAAAAATTGTTCGTGAGTATTTCCCTTACATAACCG
                                     | |  |  |   | || | |  ||| | |   |  | ||||    | ||      |     || | | ||    |||  |||| |||  |  ||          |   | ||||| || ||| |||| ||| | || || |  ||    |||||| || | |||||||| || || ||||| |||||||| || ||||||||||||||||| |
gtacgtataatgttctatgcctagttttagtttaccatgacatcttggcataagttcatgtgatctacaattagttgttctcaagaaccaagctagagtgtctttctaaaattgacgattcaatattaacaccatcttatctacttacagGTTTTTACTGCAGCTGCTGCTGATGATCGAAAAAATATTGTTTTGTTGGCATTTGAAACCATGGAAAAGATTGTTCGGGACTATTTCCCTTACATAACTG
















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|162169072|gb|FC345962.1|FC345962
EST:     TCTTTGCACGTGTGGGGAATGTCAAATCTGGCTGGAAAATCATGTTCATG                         GTCTTCACTACAGCAGCTACAGACGAGCATAAGTCCATTGTTCTGCTCGCA
genomic: TCTTTGCACGTGTGGGGAATGTCAAATCTGGCTGGAAAATCATGTTCATGgtatgaattc ... atgtatgcagGTCTTCACTACAGCAGCTACAGACGAGCATAAGTCCATTGTTCTGCTCGCA
EST: gi|162184616|gb|FC360814.1|FC360814
EST:     TCTTTGCACGTGTGGGGAATGTCAAATCTGGCTGGAAAATCATGTTCATG                         GTCTTCACTACAGCAGCTACAGACGAGCATAAGTCCATTGTTCTGCTCGCA
genomic: TCTTTGCACGTGTGGGGAATGTCAAATCTGGCTGGAAAATCATGTTCATGgtatgaattc ... atgtatgcagGTCTTCACTACAGCAGCTACAGACGAGCATAAGTCCATTGTTCTGCTCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatgaggtcgttcatgccatccttctgttgtgattaatgatggcatgtatgcagGTCTTCACTACAGCAGCTACAGACGAGCATAAGTCCATTGTTCTGCTCGCATTTGAGACAATTGAAAAAATTGTTCGTGAGTATTTCCCTTACATAACCG
                                gattaat  putative branch site (score: 3)
                                 attaatgat  TA-rich tract