RnoINT0030817 @ rn6
Intron Retention
Gene
ENSRNOG00000017044 | Ccdc183
Description
coiled-coil domain containing 183 [Source:RGD Symbol;Acc:1560370]
Coordinates
chr3:2840687-2841331:-
Coord C1 exon
chr3:2841193-2841331
Coord A exon
chr3:2840809-2841192
Coord C2 exon
chr3:2840687-2840808
Length
384 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
TGTTTCTCCACCACCGACAGAAC
3' ss Score
5.76
Exon sequences
Seq C1 exon
GAGCAGGCAACTGCACAGGAAGGGTGAGAGGCACACAGAACCCCCGCAAGGGAGGGCCTTTGGGCCACCATGAAGATACACAGTGAAGCAGCTGTGGAGGCACAGATACAGGAGCTCAGAACCATCACTCGGCTTCAGG
Seq A exon
GTGAGCCTCACACTGGGGATTCCCTCTCCGCTCTGCTACTGGGCTGCTTGCCGTCCTGCTACCCACCCAGGCCCCCACAGTGGGTAAAACTCACAGAAGGGCCTGCCATCCGAGGGGAGCGTCCAGGGAACCTGTGCATTTCCCACAATATTGGCCCAAAGTTGGAGGAATCAAGGAGATTCTCTGCACCATTCCTGGTCTTGGACCCTCTTTTTCGCCAGCAGCCATCCCTAGAGAGGCCTGCAGATTACCACTTTGAGCATGGATGCTTGTGAAGTCCAGAGCAGGGAGAGAGGAGAGAAAGTGATCACAGAGGTGATGCGCTTCGCGGAGATTCTCAGCCAGTCCTTTCACCTGGTAATCTTGTTTCTCCACCACCGACAG
Seq C2 exon
AACAATGCCGGGGGCTCCAGATCCAGGGTGTGAAGGAAAAGACAGCACAGAACAAAGCTACCATGGGCCTCCTGCGCAGCAACCTCCGTCGAGGGGCCCACGAATGGGCTTTGGCTAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017044:ENSRNOT00000061874:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.195
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTGCACAGGAAGGGTGAG
R:
CTTCTTAGCCAAAGCCCATTCG
Band lengths:
254-638
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]