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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTCAACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAGgtaagtgcctgaacaatgcaacgtgaacacttcgtttagcgaaggtttagacatgtttatatgtaaagtaaaataatgctgtaaggagagagataaccag...

Basic information

species Physcomitrella patens
transcript PP1S99_59V6.2
intron # 4
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|208362869|gb|DC950819.1|DC950819
EST:     ACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTTCCCGAAG                         ACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATG
genomic: ACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAG-TCCCGAAGgtaagtgcct ... ttttttctagACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATG
EST: gi|162157331|gb|FC333459.1|FC333459
EST:     AACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAG                         TCTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATGC
genomic: AACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAGgtaagtgcct ... ttttttctagACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATGC
EST: gi|208372849|gb|DC956250.1|DC956250
EST:     AACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAG                         ACTCCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATG
genomic: AACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAGgtaagtgcct ... ttttttctagACT-CCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATG
EST: gi|208363068|gb|DC957995.1|DC957995
EST:     AACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAG                         ACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATGC
genomic: AACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAGgtaagtgcct ... ttttttctagACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATGC
EST: gi|208357946|gb|DC943058.1|DC943058
EST:     AACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAG                         ACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATGC
genomic: AACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAGgtaagtgcct ... ttttttctagACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATGC
EST: gi|162280155|gb|FC455964.1|FC455964
EST:     GTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAG                         ACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATGC
genomic: GTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAGgtaagtgcct ... ttttttctagACTCCCCAACGGAGGGCTATTGGAGATAGCGAAAGTCTATCCTCTGGATGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCTCAACATCTTTGAGAGCAGTTTGAGGAGAGGCAAGTTCGACGAGTCCCGAAGgtaagtgcctgaacaatgcaacgtgaacacttcgtttagcgaaggtttagacatgtttatatgtaaagtaaaataatgctgtaaggagagagataaccag

- - - - - - - - AGAGCA
- - - - - - - -  GAGCAG
- - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - -  GAGAGG