Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatcactgagaactcatgaaagagacaagtcggtgggtatgtcgctttgcttctaaaccacatcttgcaagccatatatctgaccaagtctcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGGCCAACAGTGGTCTGGAAGCACATCGTTATTTGTTCAGTCATTTACACAA

Basic information

species Physcomitrella patens
transcript PP1S309_38V6.2
intron # 1
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|208360178|gb|DC939189.1|DC939189
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|100451312|gb|CJ974702.1|CJ974702
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|100452562|gb|CJ975332.1|CJ975332
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|208364079|gb|DC943391.1|DC943391
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|208385284|gb|DC915084.1|DC915084
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|208387990|gb|DC933124.1|DC933124
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|208391828|gb|DC942348.1|DC942348
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|208379673|gb|DC903728.1|DC903728
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|208392256|gb|DC929503.1|DC929503
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|100357098|gb|BY983692.1|BY983692
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|208392015|gb|DC941863.1|DC941863
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
EST: gi|208384465|gb|DC911551.1|DC911551
EST:     TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGG                         CTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG
genomic: TTGAGATACATCAGTTGTTGATAGCATCCGATCGACATACATCACTTAGGgttgagtctt ... tcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcttctaaaccacatcttgcaagccatatatctgaccaagtctcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGGCCAACAGTGGTCTGGAAGCACATCGTTATTTGTTCAGTCATTTACACAA
                            atatatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatcactgagaactcatgaaagagacaagtcggtgggtatgtcgctttgcttctaaaccacatcttgcaagccatatatctgaccaagtctcggccgcagCTTTTGAAGTGCAGGACAATTTACTCCTTGTACAAGATTTCGGTCAATCGGCCAACAGTGGTCTGGAAGCACATCGTTATTTGTTCAGTCATTTACACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG