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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcttcacaagctctctcttttcacgtttttcacgtttataatcttcgctctttcctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATCTCAACTCCCCAGAGCCGGCCGACTTCTTCGTCAGTGTTTGGCAGCGGCG

Basic information

species Selaginella moellendorffii
transcript EFJ07683
intron # 3
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|169094134|gb|FE496114.1|FE496114
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169082935|gb|FE491135.1|FE491135
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169082936|gb|FE491136.1|FE491136
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169027177|gb|FE436101.1|FE436101
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169035128|gb|FE444911.1|FE444911
EST:     TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169077677|gb|FE484939.1|FE484939
EST:     TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169075943|gb|FE480977.1|FE480977
EST:     TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169066614|gb|FE474174.1|FE474174
EST:     CGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: CGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169099398|gb|FE500481.1|FE500481
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169111869|gb|FE512172.1|FE512172
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169036773|gb|FE443811.1|FE443811
EST:     CGCCTACTGCCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: CGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169075900|gb|FE480960.1|FE480960
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169041153|gb|FE447710.1|FE447710
EST:     TCCACGACAAATCACCTCCACACGCTTANTGCCCCGGCTTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169075944|gb|FE480978.1|FE480978
EST:     TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169027178|gb|FE436102.1|FE436102
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169044982|gb|FE450878.1|FE450878
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCNTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169028937|gb|FE438103.1|FE438103
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169077932|gb|FE489341.1|FE489341
EST:     TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169100240|gb|FE502428.1|FE502428
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169101769|gb|FE500741.1|FE500741
EST:     TCCACGACAAATCACCTCCACACGCCTACTGTCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
EST: gi|169108452|gb|FE510446.1|FE510446
EST:     TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGC                         GCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC
genomic: TCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATC

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), 33 (downstream exon)
Score: 73

CCACTCCTCCTCGCCAGTGGGATCCAACGCCGACTCATACGATCTCGACGTCCACGACAAATCACCTCCACACGCCTACTGCCCCGGCCTGAGCCTCAGCgtaagttctt ... cctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATCTCAACTCCCCAGAGCCGGCCGACTTCTTCGTCAGTGTTTGGCAGCGGCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctctctcttttcacgtttttcacgtttataatcttcgctctttcctccgccagGCATCCTCGATCGATGTTGGAGTCGTCCCGGACGCAAGCTTGAGCGACATCTCAACTCCCCAGAGCCGGCCGACTTCTTCGTCAGTGTTTGGCAGCGGCG
                                 tcttcgctctttcctc  CT-rich tract
                          tttataatctt  TA-rich tract