HsaINT0046771 @ hg19
Intron Retention
Gene
ENSG00000162777 | DENND2D
Description
DENN/MADD domain containing 2D [Source:HGNC Symbol;Acc:26192]
Coordinates
chr1:111742245-111743281:-
Coord C1 exon
chr1:111743015-111743281
Coord A exon
chr1:111742421-111743014
Coord C2 exon
chr1:111742245-111742420
Length
594 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
GGGCTCTGGCTTGATTTCAGGAC
3' ss Score
5.88
Exon sequences
Seq C1 exon
CCTGGGTCCCGTCACATCCTTCTTGCTCAACCACTGGGTGCACAGGATGGAAACTTCTATTCCCTCTCTGGAAGACAGCGCGTGGCTTGGCTTCACAGAGTTGTGGCTGGAGACCGAAGCAGCCCCTTTCTCAGGCTTACTGTCACCAGTCTGTCTGTGTTAGGGGAGAGGGGAGTCCGCTCTGTCCTGAAGGCCCAGAGATGGAAGGACAAGTGGTAGGCCGGGTGTTCAGGCTCTTCCAACGCCGACTGCTTCAACTCCGAGCAG
Seq A exon
GTCAGGACTGGACTGCCTACTTCCTTGTTTTTAGGGTGACCCTCTTAGGCGGGACTGTTTCTTCCTTGAAATGCTCCTTCCTCCTCTTCCTTTATATCTCGGCCTCCACATGGTTCCCCATGTGACTGGGTCAGGAGGCTTCCTCTGCTGGTTTTTAAGAGCTGGTCATGCCCTCTCTGGGGCTAGTGTGGTCACAGTCACATGCCCTTTGAGCCTGTTCTTATTCACTTAGTATGAACTAAACTCTCAGGCCATATTGTTCCAGGACTGCCAGAAGCACCCGACAGGTTAGGCAGTCTCTGTGGTACCCTGGGGCCTTGGCCTCCATGTGGCCTCTCCAGCACATTTCCGTGGCTTCTGTGTCAGTGGTTTCTTTCCTCTGCTTGGCTCCCCATGGTTTCAAGTCTACCAGGGCAGGTGTGGAAACTGCCCATTTGGCCCTGATCCTGAGTGACTGGTGGTTCTGGCCAGTATCCAGGTATCTCAGCATTGGCAAGGCGGCCTTGAGGTGTGGAGGTCACCCGGATTCTCACAGACTCCACTCCAGGAATGGATCAATGAGATTATACTAAATGGGCTCTGGCTTGATTTCAG
Seq C2 exon
GACCACCCCAGGACAATTCAGGGGAAGCTTTAAAGGAACCAGAAAGGGCCCAGGAGCACTCTTTGCCCAACTTTGCTGGGGGGCAGCACTTCTTTGAATACCTTCTTGTGGTTTCTCTCAAAAAGAAGCGTTCAGAGGATGATTACGAGCCTATAATCACCTACCAATTTCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162777-DENND2D:NM_024901:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.349
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0345613=uDENN=PU(12.7=15.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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:
CCTTCTTGCTCAACCACTGGG
R:
ATTCAAAGAAGTGCTGCCCCC
Band lengths:
349-943
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)