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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCACAAGCACATTGTTGGCTACATCAATATGGAGCAGGACGAGCAAAGTGGAAGCTTGTACATATTCCTCGAGTACGTTTCAGGCGGATCAATCCAAAGgcaagctgcttattttatcttctcatatcacctctttcttttaaacag

Basic information

species Selaginella moellendorffii
transcript EFJ38649
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|169038638|gb|FE450135.1|FE450135
EST:     GGAAGCTTATACATATTCCTCGAGTACGTTTCAGGCGGATCAATCCAAAG                         CATGCTGGAGAGATTCGGTCGGTTCAGTGAGCCTCTCGTCCGAGTTTACAC
genomic: GGAAGCTTGTACATATTCCTCGAGTACGTTTCAGGCGGATCAATCCAAAGgcaagctgct ... ttttaaacagCATGCTGGAGAGATTCGGTCGGTTTAGTGAGCCTCTCGTCCGAGTTTACAC
EST: gi|169036895|gb|FE444986.1|FE444986
EST:     GGAAGCTTGTACATATTCCTCGAGTACGTTTCAGGCGGATCAATCCAAAG                         CATGCTGGAGAGATTCGGTCGGTTTAGTGAGCCTCTCGTCCGAGTTTACAC
genomic: GGAAGCTTGTACATATTCCTCGAGTACGTTTCAGGCGGATCAATCCAAAGgcaagctgct ... ttttaaacagCATGCTGGAGAGATTCGGTCGGTTTAGTGAGCCTCTCGTCCGAGTTTACAC
EST: gi|169036894|gb|FE444985.1|FE444985
EST:     ATCAATCCAAAG                         CATGCTGGAGAGATTCGGTCGGTTTAGTGAGCCTCTCGTCCGAGTTTACAC
genomic: ATCAATCCAAAGgcaagctgct ... ttttaaacagCATGCTGGAGAGATTCGGTCGGTTTAGTGAGCCTCTCGTCCGAGTTTACAC
EST: gi|169029910|gb|FE441078.1|FE441078
EST:     GGAAGCTTATACATATTCCTCGAGTACGTTTCAGGCGGATCAATCCAAAG                         CATGCTGGAGAGATTCGGTCGGTTCAGTGAGCCTCTCGTCCGAGTTTACAC
genomic: GGAAGCTTGTACATATTCCTCGAGTACGTTTCAGGCGGATCAATCCAAAGgcaagctgct ... ttttaaacagCATGCTGGAGAGATTCGGTCGGTTTAGTGAGCCTCTCGTCCGAGTTTACAC

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: 12

GGCACAAGCACATTGTTGGCTACATCAATATGGAGCAGGACGAGCAAAGTGGAAGCTTGTACATATTCCTCGAGTACGTTTCAGGCGGATCAATCCAAAGgcaagctgct ... ttttaaacagCATGCTGGAGAGATTCGGTCGGTTTAGTGAGCCTCTCGTCCGAGTTTACACCCGGCAGCTGCTGCTCGGCCTCCAGTACCTCCACGAGAACAGGATCGTC




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