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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACTTCAACGTGGGAGCTGGTGTGGATCTCAGCATTCCTCGAAGCTTTTGGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctcttcattacatgatgtgttgggaatcggtacttcactactttcgatagtagattatgcagagccgaactccgctcacattctcttccatttag...

Basic information

species Physcomitrella patens
transcript PP1S5_248V6.1
intron # 6
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|162204924|gb|FC380606.1|FC380606
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|162229579|gb|FC404860.1|FC404860
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|67696673|gb|BJ956906.1|BJ956906
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|22492592|gb|BU052515.1|BU052515
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|162224698|gb|FC401946.1|FC401946
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTTCA-TCGAGGCAGCGGTTAACGCAATTGGAGAATGCTT
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTT-CAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTT
EST: gi|162204923|gb|FC380605.1|FC380605
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|162224697|gb|FC401945.1|FC401945
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|162224170|gb|FC399234.1|FC399234
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|67579413|gb|BJ951534.1|BJ951534
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|67701119|gb|BJ961352.1|BJ961352
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
EST: gi|67692877|gb|BJ953110.1|BJ953110
EST:     GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATG                         GGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG
genomic: GGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctctt ... gcatgagcagGGTGAAGATGCTTCAATCGAGGCAGCGGTTAACGCAATTGGAGAATGCTTG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAACTTCAACGTGGGAGCTGGTGTGGATCTCAGCATTCCTCGAAGCTTTTGGACACGATTAGCAGGGAAATATGGCAACAAATTTTACTGGCAGGAGATGgtaagctcttcattacatgatgtgttgggaatcggtacttcactactttcgatagtagattatgcagagccgaactccgctcacattctcttccatttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG