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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcccaacatgtctcatcttgaggaaaatcttagtagtcttgatagtctttgcgatgattacgaaggtgataaggttattcagcttgaattgtttcttgcaaaactacgttagacattcgtttacaactactacaatatccatgatgcagGCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATCCTTCTGCAGTCTTTGAATAGCAACAACAAAGAA

Basic information

species Physcomitrella patens
transcript PP1S82_30V6.1
intron # 2
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|208374665|gb|DC931990.1|DC931990
EST:     ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGAT                         GCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
genomic: ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGATgtaagtgccc ... catgatgcagGCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
EST: gi|100426566|gb|BY977294.1|BY977294
EST:     ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGAT                         GCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
genomic: ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGATgtaagtgccc ... catgatgcagGCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
EST: gi|18331006|gb|BJ163012.1|BJ163012
EST:     ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGAT                         GCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
genomic: ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGATgtaagtgccc ... catgatgcagGCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
EST: gi|162228506|gb|FC404130.1|FC404130
EST:     ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGAT                         GCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
genomic: ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGATgtaagtgccc ... catgatgcagGCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
EST: gi|18326763|gb|BJ158763.1|BJ158763
EST:     ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGAT                         GCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC
genomic: ATCGTGGCGAACAATCAAGCATTAATCCCTTTATGTCAGTCCTTATTGATgtaagtgccc ... catgatgcagGCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgcaaaactacgttagacattcgtttacaactactacaatatccatgatgcagGCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATCCTTCTGCAGTCTTTGAATAGCAACAACAAAGAA
                                    tacaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgcccaacatgtctcatcttgaggaaaatcttagtagtcttgatagtctttgcgatgattacgaaggtgataaggttattcagcttgaattgtttcttgcaaaactacgttagacattcgtttacaactactacaatatccatgatgcagGCAGCGTCTAATGAGGCAGCAGATAAGATGGAGCGTGCATTTCTACAAATCCTTCTGCAGTCTTTGAATAGCAACAACAAAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA