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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGATGGGAGCCTCGGTGGATGTGAGCCGTGGAACGCGAGGCGCTGGGTTGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcgatgtcaatatattgggtgctaagatttcaagagtgtccaattaaaggaattaaattcgttttgcgcagccaaggcgcggtggattgccgt...

Basic information

species Physcomitrella patens
transcript PP1S41_62V6.1
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|208387015|gb|DC941649.1|DC941649
EST:     TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGANATCCTATGACCTCAACTCTCGATGC
genomic: TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|100384683|gb|BY950673.1|BY950673
EST:     TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|67696976|gb|BJ957209.1|BJ957209
EST:     TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|162272771|gb|FC447968.1|FC447968
EST:     TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|162273042|gb|FC449173.1|FC449173
EST:     ACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: ACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|67573591|gb|BJ946415.1|BJ946415
EST:     TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|162272770|gb|FC447967.1|FC447967
EST:     TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|18336368|gb|BJ168390.1|BJ168390
EST:     TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|18338572|gb|BJ170596.1|BJ170596
EST:     TCAAGCACGTGGACTCGGNACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATG
genomic: TCAAGCACGTGGACTCGG-ACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATG
EST: gi|162196974|gb|FC373340.1|FC373340
EST:     GTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: GTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|162273043|gb|FC449174.1|FC449174
EST:     ACGTGGACTCCGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: ACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
EST: gi|208363677|gb|DC954648.1|DC954648
EST:     TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTG                         GTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC
genomic: TGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGC

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: 35 (upstream exon), 35 (downstream exon)
Score: 30

GGCGATGGGAGCCTCGGTGGATGTGAGCCGTGGAACGCGAGGCGCTGGGTTGTGTGTGAGTTCTGGTAGCCCTTATCAAGCACGTGGACTCGGACTGGTGgtgagtagcg ... tttttattagGTTTTGTCGTTTCCCCGAGCACTGAGATCCTATGACCTCAACTCTCGATGCCGGCGACAGCCACGGAGAGGCCTTGCAGTGCTTAGAGCGTCCAACAACA




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