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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGCTGCAACCCGGCCAGCCAAGCAGATCATTGTTGGGGAGTCCTAAGAAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcggtgaatcttttctatactttaggggaattgagcggggacttaaatgtttttttgcattgaattgaagtgcacgaggttttcaggtttcta...

Basic information

species Physcomitrella patens
transcript PP1S226_55V6.1
intron # 1
splice site 5'
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|100406309|gb|BY955567.1|BY955567
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTC--                         T---GTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|100450384|gb|CJ974236.1|CJ974236
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTG                         TGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|18371186|gb|BJ202788.1|BJ202788
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTG                         TGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|100391611|gb|BY989471.1|BY989471
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTC--                         T---GTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|100379432|gb|BY986634.1|BY986634
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTC--                         T---GTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|100441221|gb|BY980842.1|BY980842
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTC--                         T---GTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|100445439|gb|CJ975588.1|CJ975588
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTC--                         T---GTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|100449404|gb|CJ973703.1|CJ973703
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTC--                         T---GTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|18347784|gb|BJ179831.1|BJ179831
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTG                         TGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|208386348|gb|DC932844.1|DC932844
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTG                         TGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|100361762|gb|BY947614.1|BY947614
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTC--                         T---GTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
EST: gi|100449620|gb|CJ973851.1|CJ973851
EST:     AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTG                         TGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA
genomic: AAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcg ... tgtggtgtagTGCAGTGCTGGAGCAGATTCTTTCCCCTCCGTTCTACGCAGCTTAGATTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTGCTGCAACCCGGCCAGCCAAGCAGATCATTGTTGGGGAGTCCTAAGAAAGTTTTGAGCTTCTATGGTGGATTTGAGCTCATGCGGTGCTCATTCTGgtgagtggcggtgaatcttttctatactttaggggaattgagcggggacttaaatgtttttttgcattgaattgaagtgcacgaggttttcaggtttcta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA