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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgttctcttcggcattcaaggtttcttttttaacatgaatcgcattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTACACCATCATCCG

Basic information

species Selaginella moellendorffii
transcript EFJ29885
intron # 3
splice site 3'
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|169107964|gb|FE513793.1|FE513793
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169050407|gb|FE457590.1|FE457590
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169058284|gb|FE465011.1|FE465011
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169050408|gb|FE457591.1|FE457591
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|70670825|gb|DN839402.1|DN839402
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169062142|gb|FE471034.1|FE471034
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169062143|gb|FE471035.1|FE471035
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169058285|gb|FE465012.1|FE465012
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169038255|gb|FE443941.1|FE443941
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169060860|gb|FE469255.1|FE469255
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169104935|gb|FE509053.1|FE509053
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169104934|gb|FE509052.1|FE509052
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169107965|gb|FE513794.1|FE513794
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
EST: gi|169038254|gb|FE443940.1|FE443940
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTA                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTAC

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), 35 (downstream exon)
Score: 45

CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTCGGCTCCATGGGTGGAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTAgtaagttgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTACACCATCATCCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgttctcttcggcattcaaggtttcttttttaacatgaatcgcattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAATCTGGACTGCCGTACACCATCATCCG
                              ttttaac  putative branch site (score: 45)
                        tttcttttttaacat  TA-rich tract