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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtccatctcttttatttgatgtccctaagcttagattttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAACTAATGAAACACTTTCTAAAACGTTTTCCTCCTGGGG

Basic information

species Selaginella moellendorffii
transcript EFJ07706
intron # 8
splice site 3'
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|169065499|gb|FE475857.1|FE475857
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169070025|gb|FE476494.1|FE476494
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169057396|gb|FE465700.1|FE465700
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169019341|gb|FE427651.1|FE427651
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTC
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTC
EST: gi|169059367|gb|FE467509.1|FE467509
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169029314|gb|FE439442.1|FE439442
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCCTCA-CTGTTTGGAAGAAGGAAACTCCACAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCC-TCAACTGTTTGGAAGAAGGAAACTCCACAAA
EST: gi|169070026|gb|FE476495.1|FE476495
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169019340|gb|FE427650.1|FE427650
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169050567|gb|FE459635.1|FE459635
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169067246|gb|FE473051.1|FE473051
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169038570|gb|FE446895.1|FE446895
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169098316|gb|FE499633.1|FE499633
EST:     CCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: CCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169044934|gb|FE450856.1|FE450856
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169029313|gb|FE439441.1|FE439441
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169102150|gb|FE505776.1|FE505776
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169036582|gb|FE444140.1|FE444140
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169111537|gb|FE510397.1|FE510397
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169035367|gb|FE444305.1|FE444305
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169114972|gb|FE516337.1|FE516337
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169113900|gb|FE515955.1|FE515955
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169099896|gb|FE503384.1|FE503384
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169030941|gb|FE436844.1|FE436844
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCCCAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
EST: gi|169061129|gb|FE470135.1|FE470135
EST:     GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAG                         GTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA
genomic: GCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAA

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: 28

GCTAGCTTCAAACCTCTAGGCATTACCATAGCAGTCGCCAAAGACAGAGCTATCGAGTCTCTCATGCAGgttcgtccat ... ttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAACTAATGAAACACTTTCTAAAACGTTTTCCTCCTGGGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcgtccatctcttttatttgatgtccctaagcttagattttactcacagGTTGGTGACAACTTCGTCCTCAACTGTTTGGAAGAAGGAAACTCCACAAAACTAATGAAACACTTTCTAAAACGTTTTCCTCCTGGGG
                     atttgat  putative branch site (score: 28)
                                           ttttactc  putative PPT
                 ttttatttgat  TA-rich tract