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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtcaattaaatacaatacttccaatccacagctacaagatgaaagtcctagttccttttagtattctctcgaatgattcggttcttatctgtatggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAGATTCAGCTTGGCTACAACGCTTTTTGGGGAAACG

Basic information

species Physcomitrella patens
transcript PP1S91_64V6.3
intron # 15
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|208385728|gb|DC952889.1|DC952889
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|37828196|gb|BJ586208.1|BJ586208
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|208373036|gb|DC948801.1|DC948801
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|162197940|gb|FC373669.1|FC373669
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|162197954|gb|FC373670.1|FC373670
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|37822942|gb|BJ581008.1|BJ581008
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|37830159|gb|BJ588171.1|BJ588171
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|162196323|gb|FC374366.1|FC374366
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|37837195|gb|BJ595203.1|BJ595203
EST:     GTTAGAGGAACCGNCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|37824436|gb|BJ582502.1|BJ582502
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|37845572|gb|BJ603580.1|BJ603580
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|162196322|gb|FC374365.1|FC374365
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
EST: gi|37827243|gb|BJ585255.1|BJ585255
EST:     GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG                         GATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG
genomic: GTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAGgtacgtcaat ... atggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagttccttttagtattctctcgaatgattcggttcttatctgtatggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAGATTCAGCTTGGCTACAACGCTTTTTGGGGAAACG
        ttttagtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtcaattaaatacaatacttccaatccacagctacaagatgaaagtcctagttccttttagtattctctcgaatgattcggttcttatctgtatggatgcagGATGTTCACAATATATGCAACGTTACCCATCTTTCAAAAATATGATCAAAGATTCAGCTTGGCTACAACGCTTTTTGGGGAAACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT