RnoINT0046442 @ rn6
Intron Retention
Gene
ENSRNOG00000046050 | Dennd1c
Description
DENN/MADD domain containing 1C [Source:MGI Symbol;Acc:MGI:1918035]
Coordinates
chr9:9977037-9977662:+
Coord C1 exon
chr9:9977037-9977162
Coord A exon
chr9:9977163-9977557
Coord C2 exon
chr9:9977558-9977662
Length
395 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
GAAAGAAATCCTTCTTCCAGGGT
3' ss Score
4.72
Exon sequences
Seq C1 exon
GTATCCCTGCTGAGGCTTCGGCTAAGGAAGGTTGCACTGAGCCCCGGGGAAGGGGTGTCTCGTCTCTTCCTCAAAGCCCAGGCCCTGCTCTTTGGAGGGTACCGTGACGCCCTGGTCTGCATCCCG
Seq A exon
GTGAGCAGATGGAGAAGGAGGAGAGATGCCAAGCCTCTCAAGGAATAAATCACAACATTAAGAATACCTAGTGGTTTAGGGTCTCAGGTAGCTTAGGCTAGCCCCAAACTTTGAACCCTGAGCCTCCTGCCTTTTTTTTTTTTCTGTTTCTTGAGACTGTGTCTTTGTAGCCCAGGTTACCCTGGAGCTCATTATGTAACCCAGCAGCAATCTCCCTACAGCAGCCCCTTACACTATCAACAGTATTTAATGCTGACAACCACATTATAGATGAGGATGAGATGTCTCATGAGGCCCTGCACAGGATCAGGTACAGGGTAGCGATGAAGTTGGAAGAAAAAACGGTAGAAGACAGGAGAGCCCCCAGGGAACTCCGAAAGAAATCCTTCTTCCAG
Seq C2 exon
GGTCAGCCAGTGACATTCAGTGAGGAGGCTTTCTTGGCTCAGAAGCCTGGGGCGCCCCTGCAGGCCTTCCACAAAAAGGCCGTACACTTGCAGCTCTTCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046050:ENSRNOT00000075215:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0345514=dDENN=PU(39.7=64.3)
A:
NA
C2:
PF0345514=dDENN=FE(50.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
TATCCCTGCTGAGGCTTCGG
R:
CTGTTTGAAGAGCTGCAAGTGT
Band lengths:
230-625
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]