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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgggactgggcaggcgtgggtgggtatcctggggtagtgcgtaatatttggttgatgggttgtgaggcggttgagtggagtggagggtctgacgggtgtgctgtttgtggcggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGAACATCAAGTGTGACTAGGGTGGGGATCGAATTTTCCCCCGCAGGAAGTT

Basic information

species Physcomitrella patens
transcript PP1S438_29V6.1
intron # 4
splice site 3'
intron type U2

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|162185784|gb|FC362340.1|FC362340
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|18336095|gb|BJ168117.1|BJ168117
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37839289|gb|BJ597297.1|BJ597297
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|162198386|gb|FC372647.1|FC372647
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|162200708|gb|FC378398.1|FC378398
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|18339069|gb|BJ171095.1|BJ171095
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37835139|gb|BJ593151.1|BJ593151
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37829656|gb|BJ587668.1|BJ587668
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|67725470|gb|BJ975729.1|BJ975729
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|18338110|gb|BJ170134.1|BJ170134
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37840480|gb|BJ598488.1|BJ598488
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37853351|gb|BJ611359.1|BJ611359
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37829360|gb|BJ587372.1|BJ587372
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37848763|gb|BJ606771.1|BJ606771
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37830386|gb|BJ588398.1|BJ588398
EST:     GGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: GGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37822502|gb|BJ580568.1|BJ580568
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATG-TTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|18340379|gb|BJ172407.1|BJ172407
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|162198385|gb|FC372646.1|FC372646
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|18334076|gb|BJ166092.1|BJ166092
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37828715|gb|BJ586727.1|BJ586727
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37823937|gb|BJ582003.1|BJ582003
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37831542|gb|BJ589554.1|BJ589554
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|208364021|gb|DC950369.1|DC950369
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|162179316|gb|FC356265.1|FC356265
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|18335310|gb|BJ167328.1|BJ167328
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|18337178|gb|BJ169202.1|BJ169202
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|18333659|gb|BJ165674.1|BJ165674
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37835050|gb|BJ593062.1|BJ593062
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
EST: gi|37852028|gb|BJ610036.1|BJ610036
EST:     CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTG                         GAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA
genomic: CTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 26

TACTACTTCTACATGAAGACGAAGATGTCCGGGTTTTTCCAGATCAGTTTCTACTTCGGGTACACGCTGATGTTCTGCCTGGGGTTGGGCATATTCTGTGgtaagtggga ... cggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGAACATCAAGTGTGACTAGGGTGGGGATCGAATTTTCCCCCGCAGGAAGTT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcggttgagtggagtggagggtctgacgggtgtgctgtttgtggcggctggcagGAGCTGTGGGGTACCTGGGGTCGTCGATGTTTGTGCGACGTATATATAGGAACATCAAGTGTGACTAGGGTGGGGATCGAATTTTCCCCCGCAGGAAGTT
                     gtctgac  putative branch site (score: 26)