Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgttctcttcggcattcaaggtttctttttaacatgaatcgcattgtatag

Basic information

species Selaginella moellendorffii
transcript EFJ06085
intron # 3
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|169100256|gb|FE501911.1|FE501911
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169053684|gb|FE461503.1|FE461503
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169104736|gb|FE508984.1|FE508984
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169100257|gb|FE501912.1|FE501912
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169104735|gb|FE508983.1|FE508983
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169053685|gb|FE461504.1|FE461504
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169113971|gb|FE516442.1|FE516442
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|70671101|gb|DN839678.1|DN839678
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169052926|gb|FE460641.1|FE460641
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169106432|gb|FE507444.1|FE507444
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|70670502|gb|DN839079.1|DN839079
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
EST: gi|169052925|gb|FE460640.1|FE460640
EST:     GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG                         ATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC
genomic: GAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTAC

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: 37

CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTGgtaaattgtt ... cattgtatagATTTGGAAGAGGAAAGCCGAGAAATATCTGTCCGAGTCTGGACTGCCGTACACCATCATCCG




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