DreINT0131091 @ danRer10
Intron Retention
Gene
ENSDARG00000100056 | scaf8
Description
SR-related CTD-associated factor 8 [Source:ZFIN;Acc:ZDB-GENE-030131-3703]
Coordinates
chr17:48859684-48860064:+
Coord C1 exon
chr17:48859684-48859755
Coord A exon
chr17:48859756-48859839
Coord C2 exon
chr17:48859840-48860064
Length
84 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
GCCTTATATCACCTTTATAGCTT
3' ss Score
7.6
Exon sequences
Seq C1 exon
GTTTCATGGCCACACCAGGAGTAGGGCCGTCAGCAGTGGGGGCAGTCACCAGTCTCGCTTCAGCTCAGAACT
Seq A exon
GTAAGTTGAACAGCCTCTGAAATACGCTATTCATGCTTTATTATCGATGAAGTTCAATTTTTAAGCCTTATATCACCTTTATAG
Seq C2 exon
CTTTAGTACAGCCTGCGATGCCAAACACTCAAGACAGCAGCAAGGATTCTCCGTTTGGTGCCATGATGCCTCCCACCGGTACTATTCCTGGGAGCTTTATTCCATCAGCAATGCCTGGGGCACAAGTCTTTAACCCTGTCGGAGCACAGCATCAGCAGAGCAGCACAGACAAAACACCTCAGTCTGCAGACGCTATGGAGGCATCTTCTGAAATAACACTACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100056:ENSDART00000161898:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.920 A=NA C2=0.961
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTCACCAGTCTCGCTTCAG
R:
TGTGCTCCGACAGGGTTAAAG
Band lengths:
178-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]