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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGAGCAGTGCTAGGGTTGCGCGATTCGCAGGGCGGGGATTGTTTCTCACGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggtttcgcgcatagattaggtcaatttctcactcggcattgctttgcgattcgcag

Basic information

species Selaginella moellendorffii
transcript EFJ08399
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|169101055|gb|FE500643.1|FE500643
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169058746|gb|FE464784.1|FE464784
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169043618|gb|FE452686.1|FE452686
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169062456|gb|FE469515.1|FE469515
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169048081|gb|FE456796.1|FE456796
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169065055|gb|FE474503.1|FE474503
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169063746|gb|FE472476.1|FE472476
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169099405|gb|FE500488.1|FE500488
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169072467|gb|FE483863.1|FE483863
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169106627|gb|FE504649.1|FE504649
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169087066|gb|FE495158.1|FE495158
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169108040|gb|FE511022.1|FE511022
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
EST: gi|169023043|gb|FE431591.1|FE431591
EST:     CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAG                         AAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT
genomic: CGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATT

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: 137

GGAGAGCAGTGCTAGGGTTGCGCGATTCGCAGGGCGGGGATTGTTTCTCACGAATTCGGGGATCGTCTCTATCGCGGCGCCATGGCGTCGGCTCCAGCAGgtcggggttt ... cgattcgcagAAAAGGCCGCGGATGACAAGAAATCCGAGTCCTCCTCATCGCAGGCGGATTTTAACGCTTTCGACATGTCGGCGATGACGAGCTTGTTGAAT




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