GgaINT0048322 @ galGal4
Intron Retention
Gene
ENSGALG00000009824 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr7:18096833-18097658:+
Coord C1 exon
chr7:18096833-18096989
Coord A exon
chr7:18096990-18097518
Coord C2 exon
chr7:18097519-18097658
Length
529 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
GGATCATTTTGCCCATACAGGAA
3' ss Score
7.35
Exon sequences
Seq C1 exon
AATAAAGGAGCGCAAGCATCAAGCAGATCTTGCCAAGCTGGAAGACAAAAGAGAAGGAGAAGAAATACAGAGATTGAGCCAACTGTACCAATTAGAACTTCTGAGAAAGATGGAAAAGGAACAGGAGAAAAAAGTTGAACGCCAGAGGCTGTATCAT
Seq A exon
GTAAGTAACAGGAAAGCAAAGAGTTCAAAATGCTCGCTTTGTTCTGTAGTGAAACAGTAGTGTTGATTAATATAGCTTAACAGGCCTACTGGCAACAGGAGCTTCAGTATGCCAGGTACCATGTACTTCCCAGTTTTATGCCCATTTTTCTTTGATAGGAAAAGGAAATAATTAGAGTCTGTGAATATGAAAATAATTGGAGGGGTTTGCACAGTTCTATTCCTGTCAGCATTCCCCTCTCCCATGTGTGTGGATGGGAGCAAGGGATAATGCTCCCTGCATTGCACAGTAATGGGTTGGTTGCAGCTCCAACCCACGTCTGATACTTGATTCCCCTTCTTTCTCTTTTCTACCACCTCCCCTTCATGCATGTTCAAACCAGATGAGGAAGCAATAAGAATCCCTTTCCTCTCCATTCTCTTTGAAAGAAACATGAAGAGAAGGAGTTGGAAGTGATTCTTTTCAGTTGCTAATCCAGGCTTAGATTTTCTAAATTTCACCTGTTATCAGGATCATTTTGCCCATACAG
Seq C2 exon
GAACACGTAGCTAACCAGAAAATAATCAAAGCAGTGGAGAAACAAAAGCAAATGGAAGAAGACAATCGGATTAGAGCTCAGTTTAAAGCAAAGCAAACTATTGCCAAGCTGATGAAAGAGAAAGAAGCTGAATTGCGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009824:ENSGALT00000015973:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.245 A=NA C2=0.447
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=FE(15.5=100)
A:
NA
C2:
PF138681=Trichoplein=FE(13.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTTGCCAAGCTGGAAGACA
R:
ACGCAATTCAGCTTCTTTCTCT
Band lengths:
270-799
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]