HsaINT0046775 @ hg19
Intron Retention
Gene
ENSG00000162777 | DENND2D
Description
DENN/MADD domain containing 2D [Source:HGNC Symbol;Acc:26192]
Coordinates
chr1:111740542-111741364:-
Coord C1 exon
chr1:111741252-111741364
Coord A exon
chr1:111740612-111741251
Coord C2 exon
chr1:111740542-111740611
Length
640 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
CCTTGTCTGCTCTTTCTTAGGGA
3' ss Score
10.03
Exon sequences
Seq C1 exon
CGGGAGAACCTGCTTCGGGGTCAGCAGGAGGAGGAGGAGCGGCTGCTCAAAGCTATCCCCTTGTTCTGCTTCCCAGATGGGAATGAGTGGGCATCACTCACCGAGTATCCCAG
Seq A exon
GTAATTGCTCAGCCCTGGGCAAGGGTATTGGATTTGGGGAGAAGGAACATGTGTGAGTTCTGTGGCTCCTGTAGCCTCCCTCACTGCTGTCATTTGTTGATTTTCGGCCTGGGAGTGTAATTGATTTGTTTGAAAACATCTGGCCTGGGGTCCCTCAAGGCCAAGAATATGAGCTATCAGTTTGATCAGTCACTTCTGTCCAAAGAGCCAGATTCTCCCACCTGTCCTAGAAGCAATAGTTGCTGCTTTTAACTCTGCTACTGGCCCAAGCTGGACTTAGCAGAAAGCAGTTAGCCTCCAAGAAGGCGACGTAGCAAAGGCCCTTCTAGCATGAGCCCTGGAATTTGACTGCTTGAGCTTTGACTTCACTATTTATGAGTTGAGTGACCTTGAATAAGAAGCACCCTCTGGCCTCAGTTCCTTCATCTTTAAAGTGGGAATAATTACTGAACCTACCTCAAAGAGTTGTTTTGACAATTAGATGAGATGATGTGTTTAGGGCCTGACACCAGTGAGCCCTTACTCCTGTGATTAATCAGCAACTCCCCTTTGCCCTCCTCTCCACCCTCTAGTGCTGACCACTTTCCTGTTTTAGGATTCAGTGAGCAATACAAATCAAGCCTTGTCTGCTCTTTCTTAG
Seq C2 exon
GGAGACCTTCTCCTTCGTTCTGACCAATGTGGATGGGAGCAGAAAGATTGGATACTGCAGGCGCCTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162777-DENND2D:NM_024901:3
Average complexity
IR-S
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:
PF0345613=uDENN=FE(52.1=100)
A:
NA
C2:
PF0345613=uDENN=FE(32.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGAACCTGCTTCGGGG
R:
CAAGAGGCGCCTGCAGTATC
Band lengths:
182-822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)