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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTGGTTTCTAATCAGGAGCTCCTCGCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggctccttctccttttggtgcgtttctgaattctttacaagcgatcgtatgctgtgttcttcatgccgctagcgtcgctgattttggaggaga...

Basic information

species Physcomitrella patens
transcript PP1S1_300V6.2
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|100396704|gb|BY953785.1|BY953785
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208350793|gb|DC913439.1|DC913439
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|18325673|gb|BJ157670.1|BJ157670
EST:     ATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: ATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100372971|gb|BY949374.1|BY949374
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|18352888|gb|BJ184943.1|BJ184943
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208376930|gb|DC910792.1|DC910792
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100444333|gb|BY982362.1|BY982362
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100385122|gb|BY987585.1|BY987585
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100412529|gb|BY974779.1|BY974779
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100450318|gb|CJ974203.1|CJ974203
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100412577|gb|BY974803.1|BY974803
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100423945|gb|BY976600.1|BY976600
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208398969|gb|DC912128.1|DC912128
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208347328|gb|DC909719.1|DC909719
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100404176|gb|BY955293.1|BY955293
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100445533|gb|CJ975682.1|CJ975682
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100451052|gb|CJ974573.1|CJ974573
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208393616|gb|DC904332.1|DC904332
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100380980|gb|BY986828.1|BY986828
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208391526|gb|DC937674.1|DC937674
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100410811|gb|BY956199.1|BY956199
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208373427|gb|DC931872.1|DC931872
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100391045|gb|BY953055.1|BY953055
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208352123|gb|DC906268.1|DC906268
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100449051|gb|CJ973350.1|CJ973350
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100451165|gb|CJ974629.1|CJ974629
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100360619|gb|BY984209.1|BY984209
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208380958|gb|DC903870.1|DC903870
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100352928|gb|BY945520.1|BY945520
EST:     GCTTTTGTAAAAGTTGAACGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208378151|gb|DC902624.1|DC902624
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208350215|gb|DC901599.1|DC901599
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100448828|gb|CJ973127.1|CJ973127
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100445852|gb|CJ970151.1|CJ970151
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100362014|gb|BY947740.1|BY947740
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|67570889|gb|BJ943713.1|BJ943713
EST:     AAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: AAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100353087|gb|BY945599.1|BY945599
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|100412457|gb|BY974743.1|BY974743
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
EST: gi|208384630|gb|DC907103.1|DC907103
EST:     GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAG                         GTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC
genomic: GCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 31 (upstream exon), 32 (downstream exon)
Score: 31

AGTTGGTTTCTAATCAGGAGCTCCTCGCTTTTGTAAAAGTTGAGCGTCGTCTTTTGCGTCAAGCATTCCTCTCGAGgtaagtgggc ... gtgtgtacagGTTCTAGTCGTGAAGCTAGTTTTGTGGAAGGAACTGTGCAGATCTCGTAGCCATGGATCACGCTGCGGATGCTATGAGGACGGATCTAATGACCATTACT




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