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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTGTGGCTGGTGGTTGCCTTTCTGTGGTCGTGCTGGGTGCATCTGGGGATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataatcatacacaaaaaccgcgattgctcgatatgtggaatattatttgtgtttaacagctcagcagtggaggtcttagcttttcactcaacaga...

Basic information

species Physcomitrella patens
transcript PP1S192_39V6.4
intron # 2
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|18368101|gb|BJ200186.1|BJ200186
EST:     ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAG                         GGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
genomic: ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataat ... tatatggcagGGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
EST: gi|100373143|gb|BY949230.1|BY949230
EST:     ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAG                         GGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGANNATG
genomic: ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataat ... tatatggcagGGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
EST: gi|100448078|gb|CJ972377.1|CJ972377
EST:     ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAG                         GGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
genomic: ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataat ... tatatggcagGGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
EST: gi|208346321|gb|DC905268.1|DC905268
EST:     ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAG                         GGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
genomic: ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataat ... tatatggcagGGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
EST: gi|18342270|gb|BJ174305.1|BJ174305
EST:     ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAG                         GGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
genomic: ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataat ... tatatggcagGGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
EST: gi|18373140|gb|BJ204742.1|BJ204742
EST:     ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAG                         GGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
genomic: ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataat ... tatatggcagGGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
EST: gi|100428162|gb|BY959314.1|BY959314
EST:     TCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTTCACCCTTTACAAGCAG                         GGGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGGCGAAAAT
genomic: TCTAGCAAAGAAGAAGACCTTCCCAGCCATTTT-CAACCTTTACAAGCAGgtagaataat ... tatatggcagGGG-TTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAAT
EST: gi|18364987|gb|BJ197061.1|BJ197061
EST:     ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAG                         GGGTTTTTACCGGATGAGATGCATATTTTTGGCT
genomic: ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataat ... tatatggcagGGGTTTTTACCGGATGAGATGCATATTTTTGGCT
EST: gi|18369451|gb|BJ201538.1|BJ201538
EST:     ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAG                         GGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG
genomic: ATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataat ... tatatggcagGGGTTTTTACCGGATGAGATGCATATTTTTGGCTATGCGAGGTCGAAAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTGTGGCTGGTGGTTGCCTTTCTGTGGTCGTGCTGGGTGCATCTGGGGATCTAGCAAAGAAGAAGACCTTCCCAGCCATTTTCAACCTTTACAAGCAGgtagaataatcatacacaaaaaccgcgattgctcgatatgtggaatattatttgtgtttaacagctcagcagtggaggtcttagcttttcactcaacaga

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG