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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAATCTTAAGCGGCTAATTGATTCGTCTCCTACCGACTTTTGGAACAAAGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttctgcttttgtgtcttcttaacctgttctttatattttacgtag

Basic information

species Selaginella moellendorffii
transcript EFJ15634
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|169035624|gb|FE445394.1|FE445394
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169032876|gb|FE438332.1|FE438332
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169095903|gb|FE497281.1|FE497281
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169099314|gb|FE501593.1|FE501593
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGAT-                         ----GGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169058648|gb|FE466857.1|FE466857
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169030797|gb|FE438143.1|FE438143
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169038608|gb|FE450131.1|FE450131
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAG
EST: gi|169103571|gb|FE507613.1|FE507613
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169113874|gb|FE515929.1|FE515929
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169052045|gb|FE460384.1|FE460384
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169057609|gb|FE463660.1|FE463660
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169024640|gb|FE432823.1|FE432823
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169096098|gb|FE500050.1|FE500050
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
EST: gi|169037499|gb|FE445538.1|FE445538
EST:     AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATG                         GGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG
genomic: AGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGG

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), 34 (downstream exon)
Score: 12

GGGAATCTTAAGCGGCTAATTGATTCGTCTCCTACCGACTTTTGGAACAAAGGCCGGATACTTGTGCAAGTTTGCGATCAATCTGCATATGTAGTCGATGgtatgcgttc ... ttttacgtagGGAAGGTGCAAGCTGTCAGCCTAAAATCAAGAGATTTTCCCGAAATTTTGGCTGTTAGACCTCTTGCAGCTGTAAGAAACGAGGAAACAAGATTTTTGGT




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