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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAATGCCATGCAGCAGCCAGTGCTGGAGAGATTCCCGAGAAGGAATTGTCTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttgcatcaaaccttgttcttctctgatttgtttctgcccag

Basic information

species Selaginella moellendorffii
transcript EFJ23843
intron # 3
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|169050668|gb|FE457838.1|FE457838
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
EST: gi|169036983|gb|FE445022.1|FE445022
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTTATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
EST: gi|169072613|gb|FE481279.1|FE481279
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
EST: gi|169077782|gb|FE485460.1|FE485460
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTTATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
EST: gi|169048788|gb|FE456607.1|FE456607
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
EST: gi|169059195|gb|FE467197.1|FE467197
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTTATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
EST: gi|169105008|gb|FE506604.1|FE506604
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTTATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
EST: gi|169073204|gb|FE481033.1|FE481033
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG
EST: gi|169039692|gb|FE448626.1|FE448626
EST:     CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGG                         GTTATACTGGGAACTGTTATTGGCATTGTAAAACCAACTGCG
genomic: CTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG

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: 27 (upstream exon), 31 (downstream exon)
Score: 4

GGAATGCCATGCAGCAGCCAGTGCTGGAGAGATTCCCGAGAAGGAATTGTCTACGTTTGAAAGAGTTGTGGAACTCTTGACAACCATGTTTCCAGTCTGGgtacgccttg ... ttctgcccagGTTATACTGGGAACTGTCATTGGCATTGTAAAACCAACTGCG




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