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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtctcgtactacttgctgaaccttttcaacgacaagtctagctcgcatgcacctaaatcgaattagagtaatttctgatatcttgactgaaacgagcccttgttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAGGATCATGTCACACACAAATTTGAAGCGCCTGATGTCCCAGAGCCCGAGA

Basic information

species Physcomitrella patens
transcript PP1S422_7V6.1
intron # 7
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|15261359|gb|BI436669.1|BI436669
EST:     CCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: CCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162166449|gb|FC342431.1|FC342431
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162262522|gb|FC439734.1|FC439734
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37840233|gb|BJ598241.1|BJ598241
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|18334128|gb|BJ166144.1|BJ166144
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162171847|gb|FC348984.1|FC348984
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|18336444|gb|BJ168466.1|BJ168466
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37827445|gb|BJ585457.1|BJ585457
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|67720293|gb|BJ970552.1|BJ970552
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162185363|gb|FC360937.1|FC360937
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37847528|gb|BJ605536.1|BJ605536
EST:     TTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGNACAGCAGCCGGTATCGTCAAATACNTGAAG
genomic: TTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37853537|gb|BJ611545.1|BJ611545
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|18336651|gb|BJ168674.1|BJ168674
EST:     TCCCAGCAGNAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: TCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162218093|gb|FC394956.1|FC394956
EST:     CTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: CTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37824366|gb|BJ582432.1|BJ582432
EST:     TTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: TTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37827885|gb|BJ585897.1|BJ585897
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162230555|gb|FC407145.1|FC407145
EST:     TTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: TTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|18339103|gb|BJ171129.1|BJ171129
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162248896|gb|FC422890.1|FC422890
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162248487|gb|FC420934.1|FC420934
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162167528|gb|FC344219.1|FC344219
EST:     TCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: TCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|208377612|gb|DC926894.1|DC926894
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162254391|gb|FC430526.1|FC430526
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37844797|gb|BJ602805.1|BJ602805
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGGGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|67694073|gb|BJ954306.1|BJ954306
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|208378241|gb|DC918862.1|DC918862
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|18332703|gb|BJ164716.1|BJ164716
EST:     GAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162263113|gb|FC439779.1|FC439779
EST:     TCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: TCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|15261295|gb|BI436605.1|BI436605
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37827776|gb|BJ585788.1|BJ585788
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37840773|gb|BJ598781.1|BJ598781
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|18335249|gb|BJ167267.1|BJ167267
EST:     GGTATCTTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTCGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|162181355|gb|FC357085.1|FC357085
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37845794|gb|BJ603802.1|BJ603802
EST:     GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: GGTATCCTACCATTCTCTTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
EST: gi|37844487|gb|BJ602495.1|BJ602495
EST:     TTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCT                         ACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG
genomic: TTCTTCCCAGCAGGAGACAAGAGCGTTGAGCCTgtaagtgtct ... ttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgaattagagtaatttctgatatcttgactgaaacgagcccttgttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAGGATCATGTCACACACAAATTTGAAGCGCCTGATGTCCCAGAGCCCGAGA
                       tcttgac  putative branch site (score: 3)
                                       cccttgttattctc  putative PPT
         agtaattt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgtctcgtactacttgctgaaccttttcaacgacaagtctagctcgcatgcacctaaatcgaattagagtaatttctgatatcttgactgaaacgagcccttgttattctcagACTCCTCTTGACACGGAAAGGACAGCAGCCGGTATCGTCAAATACCTGAAGGATCATGTCACACACAAATTTGAAGCGCCTGATGTCCCAGAGCCCGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC