DreINT0042445 @ danRer10
Intron Retention
Gene
ENSDARG00000077928 | ccdc173
Description
coiled-coil domain containing 173 [Source:ZFIN;Acc:ZDB-GENE-081104-457]
Coordinates
chr9:48525231-48525702:+
Coord C1 exon
chr9:48525231-48525404
Coord A exon
chr9:48525405-48525496
Coord C2 exon
chr9:48525497-48525702
Length
92 bp
Sequences
Splice sites
5' ss Seq
CATGTGTGT
5' ss Score
2.6
3' ss Seq
TGTCTTCCATTGTTGAACAGGGT
3' ss Score
8.12
Exon sequences
Seq C1 exon
GGACAGCGACAAAAAAAGCTTGAGGCCAAGAAAATCCGTGAGGCGATCGAAGAAGAGGAGAGAAAACTAATTGACATAGAAGAAGCGAAATACCAGGCCCAAATGCGGAAGGAGGCCATCGAGAAGGCAAAAACCCAGATGTACTACCAGACCGACAGAGTGAAAGGCTTCCAT
Seq A exon
GTGTGTGTCTCACATTATGTGATCACAAATGCAAATCTTCAGTGAAATTCTGCTCATAGAAAAACTACTGTGTGTCTTCCATTGTTGAACAG
Seq C2 exon
GGTGCTCTGATGCTGGCGGAGGTTTTGAAGGAAAGGGAGGCTCAGATTGAGCTGAAACGCATGAAGCAGAACGCCACCAAAGACATAGACCGAGACATGTTGGCTGAAATGGCTTCCAGAGAAGAGCAGGCTCTCCTGGAGGAACAGAAGAAAGCCTTACAGAAGAAACAAGAACATCAGGCCATTGTTGAGAGCTTGAAACAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077928:ENSDART00000145972:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.464
Domain overlap (PFAM):
C1:
PF096515=Cas_APE2256=PU(32.6=53.4),PF138681=Trichoplein=PU(3.7=15.5)
A:
NA
C2:
PF096515=Cas_APE2256=PD(65.3=89.9),PF138681=Trichoplein=FE(28.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGCGAAATACCAGGCCCAA
R:
TTTGGTGGCGTTCTGCTTCAT
Band lengths:
174-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]