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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCGAGGCTTTAGAGGAAGAGGGTGCCGATATCATCCAAACAGAGGGTGGAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgtcttgtggatatcttctttcccagcttacaaatttccatttaaaacag

Basic information

species Selaginella moellendorffii
transcript EFJ22466
intron # 7
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|169046730|gb|FE456668.1|FE456668
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169070532|gb|FE479809.1|FE479809
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169054264|gb|FE463205.1|FE463205
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169019639|gb|FE427468.1|FE427468
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|70670894|gb|DN839471.1|DN839471
EST:     GAACAGCTTCTGCTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169068421|gb|FE478998.1|FE478998
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169025044|gb|FE434670.1|FE434670
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169106951|gb|FE508834.1|FE508834
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169046729|gb|FE456667.1|FE456667
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169036088|gb|FE445128.1|FE445128
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169060729|gb|FE469755.1|FE469755
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169070531|gb|FE479808.1|FE479808
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169054265|gb|FE463206.1|FE463206
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAA-G                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169019638|gb|FE427467.1|FE427467
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169068959|gb|FE477703.1|FE477703
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169099322|gb|FE502108.1|FE502108
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169042964|gb|FE452318.1|FE452318
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169099321|gb|FE502107.1|FE502107
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169044589|gb|FE450628.1|FE450628
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTAC
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTAC
EST: gi|169042965|gb|FE452319.1|FE452319
EST:     GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169036087|gb|FE445127.1|FE445127
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169025043|gb|FE434669.1|FE434669
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169060728|gb|FE469754.1|FE469754
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
EST: gi|169027095|gb|FE435629.1|FE435629
EST:     GAACAGCTTCTACTCCTTCAAAGCCTGGGATCACAGGTCTCATTGAAAAG                         GCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT
genomic: GAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTT

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: 34 (upstream exon), 35 (downstream exon)
Score: 96

CGCCGAGGCTTTAGAGGAAGAGGGTGCCGATATCATCCAAACAGAGGGTGGAACAGCTTCTACTCCTTCCAAGCCTGGGATCACAGGTCTCATTGAAAAGgtagagtcgt ... tttaaaacagGCAACTCCCACACTAGCAGCTGCGTATTCCATCTCCAGAGCTATTACGCTTCCAGTTCTCTGTGCCTCTGGATTGAGTGCAGTGACAGCTCCAATGGCGA




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