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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttgcgcaaaatcagaaacaaaagtagaaactgaaacttactctctctttttctttgttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCCGAGGTTCGCGAGCTCGTCGAGTCGGCCTACGCTCGAGCCAAGCATCTCA

Basic information

species Selaginella moellendorffii
transcript EFJ31931
intron # 4
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|169071577|gb|FE479138.1|FE479138
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
EST: gi|169040866|gb|FE447917.1|FE447917
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
EST: gi|169050495|gb|FE459602.1|FE459602
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
EST: gi|169029308|gb|FE439436.1|FE439436
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGT
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGT
EST: gi|169067885|gb|FE474756.1|FE474756
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
EST: gi|169082831|gb|FE486260.1|FE486260
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
EST: gi|169044422|gb|FE451059.1|FE451059
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
EST: gi|169049265|gb|FE459541.1|FE459541
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC
EST: gi|169078967|gb|FE489687.1|FE489687
EST:     GCCAGGTCGCTCTCGGTGGCTCTGGCGGAAATCCTTTCCTCGGCCAACAG                         CTTTCTCAGCAATCCGATTACTCCATGGCCACCGCTGACGTTGTCGACGCC
genomic: GCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCC

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: 73

GCGAGTTGCACGCCAGATGGTGGAGCGATTTGGATTCAGCAACAAGATTGGCCAGGTCGCTCTCGGTGGCTCTGGTGGAAATCCTTTCCTCGGCCAACAGgttcttgcgc ... ttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCCGAGGTTCGCGAGCTCGTCGAGTCGGCCTACGCTCGAGCCAAGCATCTCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaaacaaaagtagaaactgaaacttactctctctttttctttgttcttcgcagCTTTCTCAGCAATCCGATTACTCCATGGCCACAGCTGACGTTGTCGACGCCGAGGTTCGCGAGCTCGTCGAGTCGGCCTACGCTCGAGCCAAGCATCTCA
                      aacttac  putative branch site (score: 73)
                        cttactctctcttttt  CT-rich tract
                                   tttttcttt  TA-rich tract