Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcgttgtaatatttgaaccggtgtgaatacttcgagcaaacagtcattgacactgaaatctatattgccgattattaattatagtatctcatttcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTGCCGAATGCAATGAACGCTGCAGAGATTACCGATAAGCTTGGTCTCCACT

Basic information

species Physcomitrella patens
transcript PP1S70_130V6.2
intron # 3
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|37832378|gb|BJ590390.1|BJ590390
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|67697161|gb|BJ957394.1|BJ957394
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162278351|gb|FC454229.1|FC454229
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37830446|gb|BJ588458.1|BJ588458
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|22132254|gb|BQ827059.1|BQ827059
EST:     GAGATCGTGTTG-GGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37843625|gb|BJ601633.1|BJ601633
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|67508103|gb|BJ940974.1|BJ940974
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162275814|gb|FC451375.1|FC451375
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|18356697|gb|BJ188756.1|BJ188756
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGA
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGA
EST: gi|67508075|gb|BJ940946.1|BJ940946
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|208383294|gb|DC907254.1|DC907254
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162203104|gb|FC378499.1|FC378499
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37836257|gb|BJ594265.1|BJ594265
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162230343|gb|FC406907.1|FC406907
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162203103|gb|FC378498.1|FC378498
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162194745|gb|FC371592.1|FC371592
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|67694960|gb|BJ955193.1|BJ955193
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37833638|gb|BJ591650.1|BJ591650
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37823831|gb|BJ581897.1|BJ581897
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162278350|gb|FC454228.1|FC454228
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|22492401|gb|BU052324.1|BU052324
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTT
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37827775|gb|BJ585787.1|BJ585787
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|67579405|gb|BJ951526.1|BJ951526
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|67694966|gb|BJ955199.1|BJ955199
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|67571616|gb|BJ944440.1|BJ944440
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37851802|gb|BJ609810.1|BJ609810
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37838283|gb|BJ596291.1|BJ596291
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162275815|gb|FC451376.1|FC451376
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162276716|gb|FC452710.1|FC452710
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|37843693|gb|BJ601701.1|BJ601701
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162239493|gb|FC416827.1|FC416827
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|67697926|gb|BJ958159.1|BJ958159
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|18333899|gb|BJ165915.1|BJ165915
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162230342|gb|FC406906.1|FC406906
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|18326102|gb|BJ158101.1|BJ158101
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTC
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTC
EST: gi|37845981|gb|BJ603989.1|BJ603989
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162276715|gb|FC452709.1|FC452709
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
EST: gi|162239494|gb|FC416828.1|FC416828
EST:     GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAG                         GATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG
genomic: GAGATCGTGTTGTGGAAGCCAGAGACGAGCTTCATCGGATGTTAAATGAGgtacgcgttg ... tcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacactgaaatctatattgccgattattaattatagtatctcatttcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTGCCGAATGCAATGAACGCTGCAGAGATTACCGATAAGCTTGGTCTCCACT
                        tattaat  putative branch site (score: 2)
                                      tctcatttc  putative PPT
                      attattaattatagta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgcgttgtaatatttgaaccggtgtgaatacttcgagcaaacagtcattgacactgaaatctatattgccgattattaattatagtatctcatttcatctgcagGATGAGTTGCGTGATGCTGTCCTTCTTGTGTTTGCGAACAAACAAGATTTGCCGAATGCAATGAACGCTGCAGAGATTACCGATAAGCTTGGTCTCCACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG