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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtcttgttgcttcaattttacttgagcatgaaaataaacttcgatcctcgtagttgtaggtgaattgcactcaatggcatgccgtattttgcagctgttggccgtaggaatgcacaattgggtacgcgttggtttcactaatctaaatgagtcatcatctgttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTATGACATTGTCCGTGCTGAAGTTGCTGCTAAGACTGCCAAGGGTTCATCAA

Basic information

species Physcomitrella patens
transcript PP1S98_36V6.3
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|208373612|gb|DC952437.1|DC952437
EST:     TT-GGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCANCATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208398476|gb|DC924746.1|DC924746
EST:     TTGGGAGTTCCA-NGCAC-TNTGAAATCTGATGTNGGCGGCNACA-TTCG                         AGACTGGATGCCAAGTACGGCAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208366308|gb|DC943840.1|DC943840
EST:     TGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208386562|gb|DC956882.1|DC956882
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208347378|gb|DC925346.1|DC925346
EST:     AAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: AAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|67698630|gb|BJ958863.1|BJ958863
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208366007|gb|DC951180.1|DC951180
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208360960|gb|DC957481.1|DC957481
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208365541|gb|DC954782.1|DC954782
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208346548|gb|DC916814.1|DC916814
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|162271188|gb|FC446137.1|FC446137
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|100422425|gb|BY976367.1|BY976367
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208363377|gb|DC946975.1|DC946975
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208393705|gb|DC946055.1|DC946055
EST:     TGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208363326|gb|DC935493.1|DC935493
EST:     TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208353455|gb|DC946319.1|DC946319
EST:     CATGGCACTTG-GNAATTTGATGTNGGCGGCANCATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCNTGCTGTAT
genomic: CATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208377562|gb|DC922665.1|DC922665
EST:     CTGATGTTGGCGGCAACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: CTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
EST: gi|208345900|gb|DC921085.1|DC921085
EST:     TTGGGAGTTCCATGGCACTTGTGAAATNTGATGTTGGCNGCNACATTTCG                         AGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT
genomic: TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCGgtattgtctt ... gttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgggtacgcgttggtttcactaatctaaatgagtcatcatctgttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTATGACATTGTCCGTGCTGAAGTTGCTGCTAAGACTGCCAAGGGTTCATCAA
                                       tcatctgttttttc  CT-rich tract
                       taatctaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattgtcttgttgcttcaattttacttgagcatgaaaataaacttcgatcctcgtagttgtaggtgaattgcactcaatggcatgccgtattttgcagctgttggccgtaggaatgcacaattgggtacgcgttggtttcactaatctaaatgagtcatcatctgttttttcagAGACTGGATGCCAAGTACGACAGTGATCCATCGGCGAACAGCCTGCTGTATGACATTGTCCGTGCTGAAGTTGCTGCTAAGACTGCCAAGGGTTCATCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT