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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATCTACCTGGAGGCTGTGGCGATCTTTCCTCAGTTGGTGTTGTTACAGCGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttcacaaacttgctttcgtttcatgcttttgatttcatttcag

Basic information

species Selaginella moellendorffii
transcript EFJ33020
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ33020 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: EDP09512 (Chlamydomonas reinhardtii), 5'ss of exon 4
CTATCTACCTGGAGGCTGTGGCGATCTTTCCTCAGTTGGTGTTGTTACAGCGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttcacaaacttgctttcgtttcatgcttttgatttcattt-cag-----------------------------------------------------
| |||||||| ||||| ||||| ||| | |||||| ||||| || | ||||| ||||| || || || ||||||||||| ||||| || ||| |||| ||||  |     ||   ||     |       | |   || | ||||  |||                                                     
CCATCTACCTAGAGGCAGTGGCCATCCTGCCTCAGCTGGTGCTGCTGCAGCGCACCAACAATATTGATAACCTCACCGGCAACTACGTGTTTCTGCTGGGgtgagggcggca---ttagcaacagcagccgttgcggactgcattggcaggcggtgtgcactgaatggccgggtacttgtggataccacatatggacgggggc
















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:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGGTATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169059929|gb|FE467291.1|FE467291
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGGTATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169046459|gb|FE454746.1|FE454746
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169111123|gb|FE509372.1|FE509372
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169036709|gb|FE444930.1|FE444930
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGGTATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169112069|gb|FE510721.1|FE510721
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGGTATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169111122|gb|FE509371.1|FE509371
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169053109|gb|FE463008.1|FE463008
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGGTATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169046473|gb|FE454747.1|FE454747
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169064230|gb|FE471585.1|FE471585
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGGTATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169103528|gb|FE507596.1|FE507596
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169059930|gb|FE467292.1|FE467292
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGGTATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA
EST: gi|169053108|gb|FE463007.1|FE463007
EST:     CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGG                         GGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGGTATTTCACTGA
genomic: CGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGA

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: 34 (upstream exon), 34 (downstream exon)
Score: 17

CTATCTACCTGGAGGCTGTGGCGATCTTTCCTCAGTTGGTGTTGTTACAGCGAACCAAAAACATCGACAACCTCACCGGGAACTATGTCTTTTTGCTTGGgtacgcttca ... ttcatttcagGGCATATCGAGGGCTGTATCTGTTGAATTGGATCGTTCGATATTTCACTGAAAAGGGCTACAGGCAATGGATAA




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