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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcgctaattgacaaggtgaataatctttaaatcagtgtgttgcttcaaaatgtgcatttaagtggttgcggcgcagtcccatcaatctactcatacatttcttctcttctcttttcttttcttttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCCGAGAAGCTTCCATCGAGCATCGTCACCAAAAATGGGCAAGTCATAACTG

Basic information

species Physcomitrella patens
transcript PP1S84_134V6.4
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|162163257|gb|FC339375.1|FC339375
EST:     GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
EST: gi|162169700|gb|FC345237.1|FC345237
EST:     GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
EST: gi|162199322|gb|FC373702.1|FC373702
EST:     GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGC
genomic: GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGC
EST: gi|162152233|gb|FC328212.1|FC328212
EST:     GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
EST: gi|162168128|gb|FC343818.1|FC343818
EST:     GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
EST: gi|162162203|gb|FC337985.1|FC337985
EST:     GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
EST: gi|7147996|gb|AW509918.1|AW509918
EST:     GTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: GTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
EST: gi|162199562|gb|FC373214.1|FC373214
EST:     TCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: TCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
EST: gi|162176577|gb|FC353046.1|FC353046
EST:     GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
EST: gi|162170234|gb|FC347354.1|FC347354
EST:     GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAG                         GTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC
genomic: GTCCCTCGGACGCCATCAACCTCGCCGTGCGATGCAACGTCCCCATTCAGgtatgcgcta ... ttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatcaatctactcatacatttcttctcttctcttttcttttcttttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCCGAGAAGCTTCCATCGAGCATCGTCACCAAAAATGGGCAAGTCATAACTG
           ctcatacatttcttct  CT-rich tract
                                 ttttcttttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcgctaattgacaaggtgaataatctttaaatcagtgtgttgcttcaaaatgtgcatttaagtggttgcggcgcagtcccatcaatctactcatacatttcttctcttctcttttcttttcttttccattcagGTTAACAAGGAGCTAGCTCTAGGGGACGGTGTTCGCGTTGTAAGTGAGCCCGAGAAGCTTCCATCGAGCATCGTCACCAAAAATGGGCAAGTCATAACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC