RnoINT0046457 @ rn6
Intron Retention
Gene
ENSRNOG00000046050 | Dennd1c
Description
DENN/MADD domain containing 1C [Source:MGI Symbol;Acc:MGI:1918035]
Coordinates
chr9:9974092-9974379:+
Coord C1 exon
chr9:9974092-9974161
Coord A exon
chr9:9974162-9974298
Coord C2 exon
chr9:9974299-9974379
Length
137 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGA
5' ss Score
5.26
3' ss Seq
ACTCGTCCTGTATTCCCCAGGTC
3' ss Score
11.1
Exon sequences
Seq C1 exon
CCACCTTCCCTGGTTTGAAGTGTTCTACAAGATTCTCAATACTGTGGGGGACCTCCTAGCTCAGAACCAA
Seq A exon
GTGAGACCAGCCCCACCTTCAATCCTCACCCGTCTCCCCATCACCTCTCTAATGGGCCAGGTCTCACCTCATTCACAGGGAGACCCTCAGAATCCCAAATCGTCCATCCATCCAGTAACTCGTCCTGTATTCCCCAG
Seq C2 exon
GTCACCGAGGCTGAAGAACTCCTACAGAACTTGCAGCAACACCCCTATCTTGGACCCGGTTTTTCAGGGGGACCAAAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046050:ENSRNOT00000075215:6
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:
PF0214116=DENN=FE(11.3=100)
A:
NA
C2:
PF0214116=DENN=FE(12.8=100)
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:
CCACCTTCCCTGGTTTGAAGT
R:
TTTGGTCCCCCTGAAAAACCG
Band lengths:
147-284
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]