DreINT0131069 @ danRer10
Intron Retention
Gene
ENSDARG00000077093 | scaf4a
Description
SR-related CTD-associated factor 4a [Source:ZFIN;Acc:ZDB-GENE-030131-9003]
Coordinates
chr10:25747558-25747912:-
Coord C1 exon
chr10:25747819-25747912
Coord A exon
chr10:25747705-25747818
Coord C2 exon
chr10:25747558-25747704
Length
114 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
TTTGGTTTTGATGTGCTCAGGTT
3' ss Score
7.01
Exon sequences
Seq C1 exon
GGGTTTTCCTGAGCAAACTGTCCCAGGATTTCCTCCAGCCAATCAGATGCAGCACTTTCAACAGCATATGATGGCTGTATCACAGCGCCAACAG
Seq A exon
GTAGATTATCACAGCCTCCTTTTTTGGAAGGCATTTTTTGCCTAATATTTAATCAGATGACATTTATCTGTGATTTATTATTCCCTAGTCATGTTTTGGTTTTGATGTGCTCAG
Seq C2 exon
GTTGTTCTACCTTCAAATGGACAGGTCCAAGGCTTTGGTCTCATGACCTCTCAGCCCTATCCAGGCATGATGCCTCCAATGGGGCAGCCGAACGCAGCTTTCCCTCCTCAAAATGAGGCCTTCAATCAACTCATGTCTGGACATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077093:ENSDART00000140483:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTTTTCCTGAGCAAACTGT
R:
TCCAGACATGAGTTGATTGAAGGC
Band lengths:
235-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]