RnoINT0046438 @ rn6
Intron Retention
Gene
ENSRNOG00000046050 | Dennd1c
Description
DENN/MADD domain containing 1C [Source:MGI Symbol;Acc:MGI:1918035]
Coordinates
chr9:9974777-9976424:+
Coord C1 exon
chr9:9974777-9974887
Coord A exon
chr9:9974888-9976323
Coord C2 exon
chr9:9976324-9976424
Length
1436 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGG
5' ss Score
3.71
3' ss Seq
CTGCCCTTCTCACCCCGCAGCTG
3' ss Score
11.45
Exon sequences
Seq C1 exon
AGGAACCTCACTGAGCTGGTGGTCGCTGTGACAGATGAAAACATCGTGGGGCTCTTCGCAGCGCTGCTAGCTGAGAGGAGGGTCTTGCTCACGGCCAGCAAGCTCAGCACT
Seq A exon
GTGAGGCCGACCTTCTCCCCGGGGCCGGGGGTGGGGGGTGGAGGGGTGGGAGGGGACACACTCCTAAACCTGTTCACTCAGTCCCACCCCTGTAGGGACAATCTGAGGAGGTTGCATAATTGGAGGTGGCTCCAATTTATTGGTAGCACAATCCACTGAGGACCAGACCTGGCCTAGCTGGAAGAAGATGTTAAACTTTCCAGCTGGAGCGCTCAGTGGGTAGAGCGCTCACCTCACAAGCATGAGGCCCCTGGTTCTATTTCCGACCAGGCCCTGGCAAGCACATTGCTGATACACACCTGGAATCCCAGCACTGACAGCCTGAGACAGAATCAGGAGTTCAGGGAACGTTATCCTGACATACCTAGTTTGAGGCCAGCCAGATACAAGACAGACACTCACCAGGTCTCAATGAATGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGGAAATATATTTTAAAAGATTCTAGAAGGCTGGAGAAATGGTTCAGCGGTTAAGAGCACTGACTATTCTTCTAGAGGTCCTGAGTGCAATTCCTAGCAACCACATGGTGGCCCCCAATCATCTGTAATGGGATCCAATGTCCTCTTCTGGTGTGTCTGAAGACAGAGACAGTGTACTCACACGTACATAAAACAAGTATATAAATATTTTTTTAAAAAAATCTAGGGCCAGTGAGATGGCTCAGTGAACAAAGGTGCCTACAGCCAAATTTTGAGGACTTGAGTTCAATCCCCAGGGCACATATGGTGGGAAGACAAACCCATTCCTACATGTTGTTCTTCAAATCTGCACTAGTGAGCTCTCACACACAAACTCACTCACAAACAAGTAACTGTAATCTGATTTTTTTATTTTTAGTTTCACTTTTATGTTATACAGTATAAAGATTTTTAATGTATATATGTGTATGTGGGTGCCCAAAGAGAAGATCCCCTGGAGCTGGAGTTAAAGAAGTTGTGAGCCACCATGTTGTTGCTCAGAGCTGAACCAGCTCCCAGTGTTTGGCATTTTTGGGTTTGGTTTGGTTAGGTGTGGTTTCAAGACAGATTTTCTGGAACTCACTCTGTAGACCAGGCTGGACTTGAACTCAAGAGATCCACCTGTGTCTGCCTCCTGAGTGCTGGGATTACAGGTCAGAGCCACTACGTAAAGCTCAGAGCTATTTTTTTTTTTTTAATCTGAGCACATGGAGCTATAACTGGCCAAAATCCTGGTCTCCTCTTCCTTCCTAAGGGGGTCTGAATTCCACCCAGTTCCCAGCAATGGAAGGAGGAGACAGATCAGAGAGGTCTAAGTGCCTATCTCAGTGCCCATTTCAGGGCCCCTCTCAGTGATCCAGGACCCTGAGGTGAGTAGTCTGAACCGCCACCTCTGCCCTTCTCACCCCGCAG
Seq C2 exon
CTGACAGCCTGCGTTCACGCCTCCTGCGCTCTGCTCTACCCCATGCGCTGGGAGCATGTTTTGATCCCCACGCTGCCCCCGCACCTGCTGGATTACTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046050:ENSRNOT00000075215:10
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(17.7=100)
A:
NA
C2:
PF0214116=DENN=FE(16.3=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:
AGGAACCTCACTGAGCTGGTG
R:
CAGCAGTAATCCAGCAGGTGC
Band lengths:
212-1648
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]