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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaatcttattcacagttagcggaaccatttgtgtgcacaactaatgcagtgctgattttatgaggcagtatattgttgtgaaaaaataaattctaccttgctcacaacctgatgtggattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTTTATCAACCTACTGTTCTTTGCGGTTGTAACGATGAGATGCTAATATTTA

Basic information

species Physcomitrella patens
transcript PP1S279_72V6.2
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|18335538|gb|BJ167558.1|BJ167558
EST:     GTGAAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|208391821|gb|DC937997.1|DC937997
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|162188380|gb|FC364250.1|FC364250
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|67695860|gb|BJ956093.1|BJ956093
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|37848440|gb|BJ606448.1|BJ606448
EST:     TGAAAAAGGTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: TGAAAAAGGTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|162175611|gb|FC351003.1|FC351003
EST:     GAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|37842855|gb|BJ600863.1|BJ600863
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|37847436|gb|BJ605444.1|BJ605444
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|208345206|gb|DC925476.1|DC925476
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|37851842|gb|BJ609850.1|BJ609850
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|162167720|gb|FC344034.1|FC344034
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
EST: gi|208365822|gb|DC951057.1|DC951057
EST:     GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAG                         GGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT
genomic: GTGGAAGCGCATGTCCAAGATGCAGTGTCCAAGgtagaatctt ... gattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgttgtgaaaaaataaattctaccttgctcacaacctgatgtggattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTTTATCAACCTACTGTTCTTTGCGGTTGTAACGATGAGATGCTAATATTTA
       tgaaaaaataaattct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagaatcttattcacagttagcggaaccatttgtgtgcacaactaatgcagtgctgattttatgaggcagtatattgttgtgaaaaaataaattctaccttgctcacaacctgatgtggattttgcagGGTGCTAAAGTGCTGGTAGGAGGCAAACGACATAGTCTAGGAGGCACATTTTATCAACCTACTGTTCTTTGCGGTTGTAACGATGAGATGCTAATATTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG