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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTGATTTCGACGACGATGACCAGCTGCTTAAGACCTACAGAAGCGCCACCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactaccttgcccttgttccaaaataaccttgtcaatttcctggacgacaagccatcctgtcgaaagaagaagtatgtttgtttgtaaatacttagatcatcatcatcgtgtgtgtag

Basic information

species Physcomitrella patens
transcript PP1S55_167V6.1
intron # 3
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|208344844|gb|DC912678.1|DC912678
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCANGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|100428241|gb|BY977704.1|BY977704
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|100445957|gb|CJ970256.1|CJ970256
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|208392309|gb|DC907856.1|DC907856
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCANTCCTACGGCANGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|100387098|gb|BY951497.1|BY951497
EST:     TCGGTGTGAATTTCTCA-TACTTTTATTGCGGAGAACATCCAGTTTTCGG                         AACACAGCACCCCCACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGG
genomic: TCGGTGTGAATT-CTCAATACTTT-ATTGCGGAGAACATCCAGTTT-CGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGG
EST: gi|100385841|gb|BY951035.1|BY951035
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|100388354|gb|BY951956.1|BY951956
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|208345507|gb|DC909197.1|DC909197
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|100398019|gb|BY954047.1|BY954047
EST:     CGTCGGTGTGAATTCTCAATACTTTATTGCGGGAGA-CATCCAGTTTCGG                         AACACAGCACCCCAACCNGC-TCCAGGTGCAGTCCTACGGCAAGCTGTGGC
genomic: CGTCGGTGTGAATTCTCAATACTTTATTGCGG-AGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACC-GCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGC
EST: gi|100385872|gb|BY951066.1|BY951066
EST:     CGTCGGTGTGAATTCTNCA-TACTTTATTGCNGAGAACATCCAGTTTCGG                         GACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CGTCGGTGTGAATTCT-CAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|208345559|gb|DC909249.1|DC909249
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCANGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|208348321|gb|DC905535.1|DC905535
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCANGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|208356793|gb|DC926804.1|DC926804
EST:     CCGTCNGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCNTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|100373167|gb|BY949242.1|BY949242
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|100405967|gb|BY991473.1|BY991473
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
EST: gi|100400403|gb|BY954459.1|BY954459
EST:     CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGG                         AACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT
genomic: CCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactacct ... gtgtgtgtagAACACAGCACCCCAACCGCCTCCAGGTGCAGTCCTACGGCAAGCTGTGGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGTGATTTCGACGACGATGACCAGCTGCTTAAGACCTACAGAAGCGCCACCGTCGGTGTGAATTCTCAATACTTTATTGCGGAGAACATCCAGTTTCGGgtaactaccttgcccttgttccaaaataaccttgtcaatttcctggacgacaagccatcctgtcgaaagaagaagtatgtttgtttgtaaatacttagatcatcatcatcgtgtgtgtag

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