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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttcctcatagtcattactgttcgtagttcagaacgtgtacgaattgtaattttatagtgtgtgacttctttgtttgtcctgtacatttggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGGGTGCGAAAAGCTCTGCAGTAGTAGGAGTGGCTAACACAATAGGTTTAAA

Basic information

species Physcomitrella patens
transcript PP1S201_47V6.1
intron # 25
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|162277672|gb|FC453303.1|FC453303
EST:     TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAA                         GGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
genomic: TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAAgtaagccaat ... ggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
EST: gi|37827091|gb|BJ585103.1|BJ585103
EST:     TGTACATCAGTTGTTGGGGATTTCTTTCAAAGATGCAGCTGATGCATCAA                         GGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
genomic: TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAAgtaagccaat ... ggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
EST: gi|162257086|gb|FC432825.1|FC432825
EST:     TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAA                         GGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
genomic: TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAAgtaagccaat ... ggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
EST: gi|162234186|gb|FC410569.1|FC410569
EST:     TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAA                         GGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
genomic: TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAAgtaagccaat ... ggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
EST: gi|18335288|gb|BJ167306.1|BJ167306
EST:     TGTATATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAA                         GGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
genomic: TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAAgtaagccaat ... ggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
EST: gi|162181626|gb|FC357928.1|FC357928
EST:     TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAA                         GGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
genomic: TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAAgtaagccaat ... ggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
EST: gi|37839584|gb|BJ597592.1|BJ597592
EST:     TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAA                         GGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
genomic: TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAAgtaagccaat ... ggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
EST: gi|162277671|gb|FC453302.1|FC453302
EST:     TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAA                         GGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG
genomic: TGTACATCAGTTGTTGGAGATTTCTTTCAAAGATGCAGCTGCTGCATCAAgtaagccaat ... ggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtaattttatagtgtgtgacttctttgtttgtcctgtacatttggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGGGTGCGAAAAGCTCTGCAGTAGTAGGAGTGGCTAACACAATAGGTTTAAA
     attttatagt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttcctcatagtcattactgttcgtagttcagaacgtgtacgaattgtaattttatagtgtgtgacttctttgtttgtcctgtacatttggctttgcagGGTGGTCAGCACGTTGTGCGGAATTGTTCCCCTATTCAATATATTTTAAGGGTGCGAAAAGCTCTGCAGTAGTAGGAGTGGCTAACACAATAGGTTTAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG