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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTATGCCTATGGCATGATTTGCGCGTGCATTGCTGGTACAATCTGGATTGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtttttctgttccgtgtgttaggatatcacagatgcaaattgctgagcttcatcgacgcagaatttaattcatcacgtgatttcataaacctgatttcacacgttaatcgtgttcttgtcattttccactctaccacaatctcgtgtgttgacgtgagcatcctctgtgaccgtgcacag

Basic information

species Physcomitrella patens
transcript PP1S100_198V6.2
intron # 4
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|18326001|gb|BJ158000.1|BJ158000
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGAC
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGAC
EST: gi|18361423|gb|BJ193489.1|BJ193489
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGC
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGC
EST: gi|18325506|gb|BJ157503.1|BJ157503
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGC
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGC
EST: gi|18330350|gb|BJ162356.1|BJ162356
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGC
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGC
EST: gi|18330756|gb|BJ162762.1|BJ162762
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18325613|gb|BJ157610.1|BJ157610
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCT
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCT
EST: gi|18329694|gb|BJ161700.1|BJ161700
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18330259|gb|BJ162265.1|BJ162265
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18328969|gb|BJ160975.1|BJ160975
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18374420|gb|BJ205998.1|BJ205998
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGG
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGG
EST: gi|18329368|gb|BJ161374.1|BJ161374
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18347749|gb|BJ179796.1|BJ179796
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18344180|gb|BJ176219.1|BJ176219
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18332289|gb|BJ164302.1|BJ164302
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18359780|gb|BJ191841.1|BJ191841
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGNCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATNA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18355771|gb|BJ187830.1|BJ187830
EST:     TGCGGTCGCTTCNAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18325798|gb|BJ157795.1|BJ157795
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18328115|gb|BJ160119.1|BJ160119
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18369497|gb|BJ201584.1|BJ201584
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGC
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGC
EST: gi|18367200|gb|BJ199281.1|BJ199281
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18358412|gb|BJ190471.1|BJ190471
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18326157|gb|BJ158156.1|BJ158156
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18367452|gb|BJ199535.1|BJ199535
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18349364|gb|BJ181413.1|BJ181413
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18330492|gb|BJ162498.1|BJ162498
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
EST: gi|18328497|gb|BJ160502.1|BJ160502
EST:     TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTG                         TTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA
genomic: TGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtt ... ccgtgcacagTTGCCAGTATCGTCTCTTTTGGCTTGATCTGGGACGGCTCGGAGGCAATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGTATGCCTATGGCATGATTTGCGCGTGCATTGCTGGTACAATCTGGATTGCGGTCGCTTCGAAGATTGGAGTAAATGTCTCTGGCACCCACTTCATTGgtgagttgtttttctgttccgtgtgttaggatatcacagatgcaaattgctgagcttcatcgacgcagaatttaattcatcacgtgatttcataaacctgatttcacacgttaatcgtgttcttgtcattttccactctaccacaatctcgtgtgttgacgtgagcatcctctgtgaccgtgcacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG