GgaINT0048320 @ galGal4
Intron Retention
Gene
ENSGALG00000009824 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr7:18095453-18095913:+
Coord C1 exon
chr7:18095453-18095626
Coord A exon
chr7:18095627-18095719
Coord C2 exon
chr7:18095720-18095913
Length
93 bp
Sequences
Splice sites
5' ss Seq
CATGTTTGT
5' ss Score
-4.64
3' ss Seq
CTAAAATTGTTCTCTTGCAGAGC
3' ss Score
9.25
Exon sequences
Seq C1 exon
GGCCAGGCACAAAGGAAACTGAAAGCCAAAAAACTCCGTGAAGAAAAGCAAGAGGAAGAAAGAAAGTTACTTGATTTGGAAGAAGCAAAATTCCAAGCAGCAAAATGGAAGGAGGCCATCGATAAAGCAAAAACTTATCTGTACCACCAGAACGAAAGAGTGAAAGGGCTGCAT
Seq A exon
GTTTGTTGACAATTTACAGTTTTTACATTCAAATCATACTGAGTTTCTTTAAACACTTTGGACATGCAAATTACTAAAATTGTTCTCTTGCAG
Seq C2 exon
AGCGCACTTCTACTTGCTGAGGTCCTAAAGGAAAGGGATGCTCAAATTGAATTTAAAAAGTTAAAGTCAGATGTTAACAAAAAGAAGGAAGAAGAAATAGAACGTCGGTGTAAAGAAGCTCTTCTCAGAGAGGAAGAAAAGGTACATCAGCGTTATATGAATCGACTGGCACTAAGCAGAGATCAGCTGGAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009824:ENSGALT00000015973:3
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=0.031
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=PU(2.7=15.5)
A:
NA
C2:
PF138681=Trichoplein=FE(19.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCCGTGAAGAAAAGCAAGAGG
R:
GGACCTCAGCAAGTAGAAGTGC
Band lengths:
167-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]