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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagccttcatcaagaacatcgtgacaataaaaaggggagccgtggccaagagctgagaaattttagttcaatttcagcttggttaattttagtggagtttcgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACAAGTACTTGGAAGACATCGACCTGATGAGCCAGATGAATCTTGATGCGTT

Basic information

species Physcomitrella patens
transcript PP1S76_8V6.1
intron # 2
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|208377393|gb|DC906648.1|DC906648
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100412613|gb|BY974821.1|BY974821
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|18375447|gb|BJ207025.1|BJ207025
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|162249661|gb|FC426801.1|FC426801
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|18368462|gb|BJ200547.1|BJ200547
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100393326|gb|BY989824.1|BY989824
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100375234|gb|BY948810.1|BY948810
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100396545|gb|BY990178.1|BY990178
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100432068|gb|BY978649.1|BY978649
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100360599|gb|BY984199.1|BY984199
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|67716232|gb|BJ966492.1|BJ966492
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|208383670|gb|DC907061.1|DC907061
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100362831|gb|BY947550.1|BY947550
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|18329187|gb|BJ161193.1|BJ161193
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100391024|gb|BY953034.1|BY953034
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|162183972|gb|FC359342.1|FC359342
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|18369484|gb|BJ201571.1|BJ201571
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100387996|gb|BY988469.1|BY988469
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|162154400|gb|FC330207.1|FC330207
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100445704|gb|CJ970003.1|CJ970003
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|162258357|gb|FC434284.1|FC434284
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100358802|gb|BY946698.1|BY946698
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|162157552|gb|FC333810.1|FC333810
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100437296|gb|BY961449.1|BY961449
EST:     CGGGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100452031|gb|CJ975065.1|CJ975065
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|67719020|gb|BJ969279.1|BJ969279
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100376261|gb|BY986100.1|BY986100
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100430239|gb|BY959769.1|BY959769
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|208380336|gb|DC907661.1|DC907661
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGGCTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100417188|gb|BY957211.1|BY957211
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|67704515|gb|BJ964748.1|BJ964748
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|67718927|gb|BJ969186.1|BJ969186
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100418352|gb|BY957377.1|BY957377
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
EST: gi|100365284|gb|BY966902.1|BY966902
EST:     CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAG                         GGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA
genomic: CGAGGGAGGTCGGGAGACAAACATTTGGGACACATTCTCGAAAACCCCAGgtaaagcctt ... cgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaaattttagttcaatttcagcttggttaattttagtggagtttcgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACAAGTACTTGGAAGACATCGACCTGATGAGCCAGATGAATCTTGATGCGTT
                         ggttaat  putative branch site (score: 4)
     ttttagttcaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagccttcatcaagaacatcgtgacaataaaaaggggagccgtggccaagagctgagaaattttagttcaatttcagcttggttaattttagtggagtttcgatctgcagGGAAGACTGTGGATGGAAAGGATGGCGATGTGGCAAGCGACCAGTATCACAAGTACTTGGAAGACATCGACCTGATGAGCCAGATGAATCTTGATGCGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG