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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcgttcccaaggaatcccaatgcttaaaaagaattatttcacgttgtaattctcgcacaaatttggcacatgtag

Basic information

species Selaginella moellendorffii
transcript EFJ33580
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ33580 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: AT5G56500.2 (Arabidopsis thaliana), 5'ss of exon 13
GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcgttcccaaggaatcccaatgcttaaaaagaattatttcacgttgtaattctcgcacaaatttggcacatgtag
|| ||| |    || |||  ||| || ||||| |||||||| |||||   ||  ||  |||||||||| ||||||||||||||||||||||| ||  ||   |||||  |    | |  ||  || |||     | ||||  ||  |||             ||  ||       
GTTCTTTCTAGTGACAACCCTAAACATGGTTACAATGCTGCAACTGGCAAATACGAAGATCTCATGGCTGCAGGAATCATTGATCCAACCAAAgtgagcaaagttccttactttttcacata-ttgaaatctgctgtttcgggtgctaaccgagttttcttcttttcaag-----
















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|169077167|gb|FE486093.1|FE486093
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169098700|gb|FE500238.1|FE500238
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169024290|gb|FE432551.1|FE432551
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169030365|gb|FE437828.1|FE437828
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169081608|gb|FE491262.1|FE491262
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169021473|gb|FE428560.1|FE428560
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169028066|gb|FE435424.1|FE435424
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169098667|gb|FE500231.1|FE500231
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169038911|gb|FE449628.1|FE449628
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169024240|gb|FE435218.1|FE435218
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
EST: gi|169111606|gb|FE513963.1|FE513963
EST:     CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG                         GTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC
genomic: CTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTC

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), 29 (downstream exon)
Score: 20

GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAGgtatgcttcg ... gcacatgtagGTAGTCAGGTGCTGTTTAGAGCACGCAGGCTCCGTAGCAAGGACCTTCCTCACATCAGACGCAGTAGTCGTATCCATCCCGGAACCAGAGCCTGCTGTTC




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