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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGATAATAGTCCCACTCGTAGGCTGTTTTACTTGGCCTTGCCTCCTTCAGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttcctgcttctcgcacttctctttaagtgtggctcttttgaaatctactctttatcctggtaacaggttgatgatttaagttctgattcgtat...

Basic information

species Physcomitrella patens
transcript PP1S222_130V6.2
intron # 5
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|162200922|gb|FC377325.1|FC377325
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCANA                         GAGGATGGACCAGAGTGATTGTAGAANAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162165174|gb|FC341676.1|FC341676
EST:     CGGAAGCACTGCATGAATCAAA                         GAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
genomic: CGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162170244|gb|FC347364.1|FC347364
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAA                         GAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162220370|gb|FC395738.1|FC395738
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCANA                         GAGGATGGACCAGAGTGATTGTAGAANAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162196667|gb|FC374632.1|FC374632
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAA                         GAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162257683|gb|FC433610.1|FC433610
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCANA                         GAGGATGGACCAGAGTGATTGTAGAANAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162263641|gb|FC440125.1|FC440125
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAA                         GAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162168431|gb|FC344407.1|FC344407
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCANA                         GAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162149665|gb|FC326716.1|FC326716
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAA                         GAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
EST: gi|162162513|gb|FC338607.1|FC338607
EST:     AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAA                         GAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT
genomic: AGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttc ... ttccctacagGAGGATGGACCAGAGTGATTGTAGAAAAGCCTTTTGGGAAGGACTTGGAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACGATAATAGTCCCACTCGTAGGCTGTTTTACTTGGCCTTGCCTCCTTCAGTCTATCCGCTTGTGAGCAAGCAGATTCGGAAGCACTGCATGAATCAAAgtacggtttcctgcttctcgcacttctctttaagtgtggctcttttgaaatctactctttatcctggtaacaggttgatgatttaagttctgattcgtat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT