RnoINT0046443 @ rn6
Intron Retention
Gene
ENSRNOG00000046050 | Dennd1c
Description
DENN/MADD domain containing 1C [Source:MGI Symbol;Acc:MGI:1918035]
Coordinates
chr9:9977558-9977996:+
Coord C1 exon
chr9:9977558-9977662
Coord A exon
chr9:9977663-9977902
Coord C2 exon
chr9:9977903-9977996
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCTCTCTCCCTACCCTAAGTTC
3' ss Score
7.4
Exon sequences
Seq C1 exon
GGTCAGCCAGTGACATTCAGTGAGGAGGCTTTCTTGGCTCAGAAGCCTGGGGCGCCCCTGCAGGCCTTCCACAAAAAGGCCGTACACTTGCAGCTCTTCAAACAG
Seq A exon
GTGAGCCACTGGGGCGGTGCCTAAAGTGAAAAATAAGGGATTCGCTGCTAGTCCCTGAGGCGGGGCCTAAGGTGACGAATGGGGATGGGCTGCGGGTCCCTGACGTCAGGGCCAAGTTGAATGCCTAATTTCTAGAATGGTTTCAAGATTTGAGGGCCTTGGGAGGGGCCTGGTAAGCTGGCTTCTAAGTCTATAGGGAACAACATGAACTTGAGTTTGACCCTCTCTCCCTACCCTAAG
Seq C2 exon
TTCATCGAATCCCGACTGGAAAAACTCAATGCTGGAGAAGGTTTCTCAGACCAATTTGAGCAAGAGATCATTGCCTGCTGCGGAGCTTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046050:ENSRNOT00000075215:15
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=FE(50.0=100)
A:
NA
C2:
PF0345514=dDENN=PD(5.9=12.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TCAGCCAGTGACATTCAGTG
R:
CTCCGCAGCAGGCAATGATC
Band lengths:
188-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]