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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTTAACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcctccgtaacttggcttgaacgatttcgttagcttatgcgtttagaggaatgcaatgtgggtgaacataatcaatcacgaatgcttgtcaact...

Basic information

species Physcomitrella patens
transcript PP1S29_256V6.2
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|67718262|gb|BJ968521.1|BJ968521
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|19777824|gb|BQ039232.1|BQ039232
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|162169758|gb|FC345295.1|FC345295
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|162176349|gb|FC353534.1|FC353534
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|100384688|gb|BY950678.1|BY950678
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|100403476|gb|BY991219.1|BY991219
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|100429370|gb|BY978077.1|BY978077
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|162167232|gb|FC342797.1|FC342797
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|19789330|gb|BQ041244.1|BQ041244
EST:     TCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: TCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|162176594|gb|FC353063.1|FC353063
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|162171618|gb|FC347559.1|FC347559
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|67718833|gb|BJ969092.1|BJ969092
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
EST: gi|162241271|gb|FC416902.1|FC416902
EST:     AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCA                         GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC
genomic: AACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcct ... gtttccttagGCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCTTAACATCTTCGAGACCAGTCTCAGGAGAGGCAAGTTCGACGAGTCCCGGCAgtaagtgcctccgtaacttggcttgaacgatttcgttagcttatgcgtttagaggaatgcaatgtgggtgaacataatcaatcacgaatgcttgtcaact

- - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - -  GAGAGG