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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagatcaatatgtctgaattacgtctgggctacctccattggtgtaagttttttttttttttttttttttttttttctgattctcaacgttgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTCTGGAGGGAAACTAGGTTTTCTAAGTCGCCATTCCAGGAATTTACTGACT

Basic information

species Physcomitrella patens
transcript PP1S411_32V6.1
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|162227123|gb|FC403403.1|FC403403
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|208364351|gb|DC950652.1|DC950652
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|162169892|gb|FC346248.1|FC346248
EST:     TATTCATTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|162175516|gb|FC351766.1|FC351766
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|37833595|gb|BJ591607.1|BJ591607
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|162227124|gb|FC403404.1|FC403404
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|208345361|gb|DC917300.1|DC917300
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|162249961|gb|FC427062.1|FC427062
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAA-TTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGA-GACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|6166853|gb|AW145117.1|AW145117
EST:     TCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|162249960|gb|FC427061.1|FC427061
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|67726755|gb|BJ977014.1|BJ977014
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|67718266|gb|BJ968525.1|BJ968525
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAAACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|208387376|gb|DC949161.1|DC949161
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|37831527|gb|BJ589539.1|BJ589539
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|208366968|gb|DC951455.1|DC951455
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|37824504|gb|BJ582570.1|BJ582570
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|162253437|gb|FC430071.1|FC430071
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTG
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTG
EST: gi|208382366|gb|DC927900.1|DC927900
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|208364157|gb|DC950421.1|DC950421
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|162214566|gb|FC391533.1|FC391533
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|162253436|gb|FC430070.1|FC430070
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
EST: gi|18341277|gb|BJ173311.1|BJ173311
EST:     TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAG                         GCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC
genomic: TATTCACTTCATCACGCGGCTCCACCAAAACTCTTGGAAATTTCGTTAAGgtgtgtacct ... tgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagttttttttttttttttttttttttttttctgattctcaacgttgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTCTGGAGGGAAACTAGGTTTTCTAAGTCGCCATTCCAGGAATTTACTGACT
       tttttttttttttttt  CT-rich tract
     tttttttttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagatcaatatgtctgaattacgtctgggctacctccattggtgtaagttttttttttttttttttttttttttttctgattctcaacgttgatttgcagGCGACATTTGAGTGTCTTTTGAAGACTTACGGTTTCTTGACTCCAGATCTCTGGAGGGAAACTAGGTTTTCTAAGTCGCCATTCCAGGAATTTACTGACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG