DreINT0153699 @ danRer10
Intron Retention
Gene
ENSDARG00000067673 | snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:ZFIN;Acc:ZDB-GENE-030131-5794]
Coordinates
chr5:50544108-50544389:-
Coord C1 exon
chr5:50544264-50544389
Coord A exon
chr5:50544187-50544263
Coord C2 exon
chr5:50544108-50544186
Length
77 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGT
5' ss Score
7.12
3' ss Seq
ATTTTGATTTGTTTTTCTAGGGT
3' ss Score
9.96
Exon sequences
Seq C1 exon
AAAGAGATCGAGGTCCAGCTCTCTGGCCCAGGCAACTCTATCTTCTCAGTACCTGGAGTTCCTCCTCAGAAACAATTTCTAGGATACTTCTTAAAGCCTTACTTCAAGGACAAACTCACCGGTTTG
Seq A exon
GTATGTTTATGTGTTTGACCCCAAAAGTCTTTAAAGTAATGCATTTCCATTTTACCCATTTTGATTTGTTTTTCTAG
Seq C2 exon
GGTCCTCCAGCTAATGAGGAAACTAAAGAGAGGATGAAGCATGGTAGCATACCTGTTGATAATCTGAAAATTAAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067673:ENSDART00000141424:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.602
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATCGAGGTCCAGCTCTCTG
R:
TGCTACCATGCTTCATCCTCTC
Band lengths:
171-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]