DreINT0008856 @ danRer10
Intron Retention
Gene
ENSDARG00000078503 | DENND1C
Description
DENN/MADD domain containing 1C [Source:HGNC Symbol;Acc:HGNC:26225]
Coordinates
chr1:55531469-55531892:-
Coord C1 exon
chr1:55531782-55531892
Coord A exon
chr1:55531570-55531781
Coord C2 exon
chr1:55531469-55531569
Length
212 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
GTTTGTGTGTGTTGGTTTAGCTG
3' ss Score
6.9
Exon sequences
Seq C1 exon
AGGAACCTGACGGAGCTGGTGGTGGCGGTGGATGTTGGTAATCTGCTCCAGCTCTACGCCAGCATGCTGTTTGAGAGACGGATCCTCATTTACTGCAGTAAACTCAGCACG
Seq A exon
GTGAGCTCAGAGTGGGGTTTTCTGTGTGCTGAGTCACTTTAGCTACTAACACTTAAGCTGAAGCTGTTCAAAGTAGAGCACGACATCATCCAATTCAAGATCATGCATTCAAACTCCAATAATATTATCTAACTACTATCTAATAGGGTTGACAGGTATGTATAACACTATGCCTAATCACTCTCTCTCTCTGTTTGTGTGTGTTGGTTTAG
Seq C2 exon
CTGACGGCGTGTGTTCATGCATGTAACGGGATGCTCTTCCCAATGTACTGGCAACACATCTTTATTCCAGTGCTGCCACCTCACCTGCTGGACTACTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078503:ENSDART00000142505:9
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(15.4=100)
A:
NA
C2:
PF0214116=DENN=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAACCTGACGGAGCTGG
R:
CAGCAGTAGTCCAGCAGGTGA
Band lengths:
212-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]