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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGATGCGTATTCTTATGGTTGGTCTCGACGCAGCTGGTAAGACCACTATTTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctgattcagcatacctctcttctggtcatgtcctctcttgccttcgtgttttgcgttcgctgtccctgagcgtgagaggttcggttctggagt...

Basic information

species Physcomitrella patens
transcript PP1S70_130V6.2
intron # 1
splice site 5'
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|37832378|gb|BJ590390.1|BJ590390
EST:     CAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: CAAGCTCAAGCTCGGCGAGATCGTCACCACCATT-CCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|67697161|gb|BJ957394.1|BJ957394
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         G-TTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162278351|gb|FC454229.1|FC454229
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|67571610|gb|BJ944434.1|BJ944434
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|67508103|gb|BJ940974.1|BJ940974
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162275814|gb|FC451375.1|FC451375
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|18356697|gb|BJ188756.1|BJ188756
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|208383294|gb|DC907254.1|DC907254
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162203104|gb|FC378499.1|FC378499
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|37836257|gb|BJ594265.1|BJ594265
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162230343|gb|FC406907.1|FC406907
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162203103|gb|FC378498.1|FC378498
EST:     AGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: AGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|18360567|gb|BJ192630.1|BJ192630
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|18343475|gb|BJ175513.1|BJ175513
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162194745|gb|FC371592.1|FC371592
EST:     CTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTT-ACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: CTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|67694960|gb|BJ955193.1|BJ955193
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|37833638|gb|BJ591650.1|BJ591650
EST:     CGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: CGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162278350|gb|FC454228.1|FC454228
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|22492401|gb|BU052324.1|BU052324
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|37827775|gb|BJ585787.1|BJ585787
EST:     TTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATT-CCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|67694966|gb|BJ955199.1|BJ955199
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|67571616|gb|BJ944440.1|BJ944440
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|37838283|gb|BJ596291.1|BJ596291
EST:     TTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATT-CCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162275815|gb|FC451376.1|FC451376
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162276716|gb|FC452710.1|FC452710
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162239493|gb|FC416827.1|FC416827
EST:     AGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: AGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|67697926|gb|BJ958159.1|BJ958159
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|18333899|gb|BJ165915.1|BJ165915
EST:     CTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: CTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|18326102|gb|BJ158101.1|BJ158101
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|37845981|gb|BJ603989.1|BJ603989
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162276715|gb|FC452709.1|FC452709
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
EST: gi|162239494|gb|FC416828.1|FC416828
EST:     TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCG                         GTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG
genomic: TTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctg ... ttttttacagGTTTTAACGTGGAGACTGTTGAATACAAGAACATTAGTTTCACTGTGTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGATGCGTATTCTTATGGTTGGTCTCGACGCAGCTGGTAAGACCACTATTTTGTACAAGCTCAAGCTCGGCGAGATCGTCACCACCATTCCCACCATCGgtatgttctgattcagcatacctctcttctggtcatgtcctctcttgccttcgtgttttgcgttcgctgtccctgagcgtgagaggttcggttctggagt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC