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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatttttgtttatatcacaacttaccaaggattttaaattcatttcttctccgttttttcccgtgtgcag

Basic information

species Selaginella moellendorffii
transcript EFJ33020
intron # 4
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|169112068|gb|FE510720.1|FE510720
EST:     GAATTGGATCGTTCGGTATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCACTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169059929|gb|FE467291.1|FE467291
EST:     GAATTGGATCGTTCGGTATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCACTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169046459|gb|FE454746.1|FE454746
EST:     GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169111123|gb|FE509372.1|FE509372
EST:     GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169036709|gb|FE444930.1|FE444930
EST:     GAATTGGATCGTTCGGTATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCACTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169051949|gb|FE460080.1|FE460080
EST:     AAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
genomic: AAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169112069|gb|FE510721.1|FE510721
EST:     GAATTGGATCGTTCGGTATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCACTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169111122|gb|FE509371.1|FE509371
EST:     GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169053109|gb|FE463008.1|FE463008
EST:     GAATTGGATCGTTCGGTATTTCACTGAANAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCACTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169046473|gb|FE454747.1|FE454747
EST:     GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169064230|gb|FE471585.1|FE471585
EST:     GAATTGGATCGTTCGGTATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCACTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169103528|gb|FE507596.1|FE507596
EST:     GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169059930|gb|FE467292.1|FE467292
EST:     GAATTGGATCGTTCGGTATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCACTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT
EST: gi|169053108|gb|FE463007.1|FE463007
EST:     GAATTGGATCGTTCGGTATTTCACTGAAAAGGGCTACAGGCAATGGATAA                         CATGGATATCTGGAATTGTACAGACCGCACTGTATGCGGACTTCTTTTACT
genomic: GAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACT

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), 28 (downstream exon)
Score: 14

GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAAgtatgacatt ... ccgtgtgcagCATGGATATCTGGAATTGTACAGACCGCGCTGTATGCGGACTTCTTTTACTATTACATCAAGTG




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