RnoINT0030696 @ rn6
Intron Retention
Gene
ENSRNOG00000052954 | Ccdc173
Description
coiled-coil domain containing 173 [Source:RGD Symbol;Acc:1308818]
Coordinates
chr3:56024090-56024572:-
Coord C1 exon
chr3:56024399-56024572
Coord A exon
chr3:56024284-56024398
Coord C2 exon
chr3:56024090-56024283
Length
115 bp
Sequences
Splice sites
5' ss Seq
CATGTACTA
5' ss Score
-4.29
3' ss Seq
AGTGTGATTTTTTTTTGTAGTCA
3' ss Score
6.04
Exon sequences
Seq C1 exon
GGAATGAAAGAACAGAAACTTAGAGCCAAGCAGAAGCGTGATGAAGAGCTTGAGGCTGAAAGACAAATTCTTGATCTGGAGGAAGAAATATACAAACAAGGAGAAAGGAAGAAGGCCATCGAAAATGCAAAGCAGTATCAGTTTTACCAGACAGAGAGAGTGAAACGCTTTCAT
Seq A exon
GTACTATCTGGCTTCTCTTCTCTCTATATATATGTATATTTAGCATACATAGTTAACAGTTTTCTCTCTGTAAGTATACATAGTTTTCTTAAAATAGTGTGATTTTTTTTTGTAG
Seq C2 exon
TCAGGACTTCTTCTCAGTAGAGTTATGAAAGAGCGTGATGTCCAGATTCAGTACAAAAAGAACGCAGTAAAATCAGATGAAAAATGGGAGGAGCAAGTGAAACTCAACGATGCGAAAGCTCTTAAAGAAGACCAAGAGAAACTAGAAAAGCAGCGCAGAGAAAGAGTAGCTCTTGCCAAAGATCACCTGAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052954:ENSRNOT00000089637:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.276 A=NA C2=0.323
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=PU(2.7=15.5)
A:
NA
C2:
PF138681=Trichoplein=FE(19.2=100)
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:
GCAGAAGCGTGATGAAGAGCT
R:
GAGTTTCACTTGCTCCTCCCA
Band lengths:
250-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]