HsaINT0046721 @ hg19
Intron Retention
Gene
ENSG00000205744 | DENND1C
Description
DENN/MADD domain containing 1C [Source:HGNC Symbol;Acc:26225]
Coordinates
chr19:6471417-6473004:-
Coord C1 exon
chr19:6472900-6473004
Coord A exon
chr19:6471508-6472899
Coord C2 exon
chr19:6471417-6471507
Length
1392 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TTTACTGTCCCCCACCCCAGTTC
3' ss Score
7.98
Exon sequences
Seq C1 exon
GGCCAGCCAGTGACCTTCAGTGAGGAAGTCTTCTTGGCCCAGAAGCCTGGGGCACCTCTGCAGGCCTTCCACCGGCGGGCTGTGCACCTGCAGCTGTTCAAACAG
Seq A exon
GTATGCCAGAGCCCTGAGGGTCCAGCTGGGACTGGAGGTGGACTGCTGAGTCCCCGAGGGCTTGTCTGAACTGGCAGGGTTGAGGGCAGACTCCTGGGTCCCTGAGGGTATAGCTGGAGACAGTCCAGCAGGATCCCCTACTCCAGGGTTCCCAAGTGGGGAAGGACTGAACTCCTGGATTCCTAAAGATGGGAGCCCCCGGCTGGGCACAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCGGATCACGAGTTCAGGAGTTCAAGACCAGCCCTACCAATATGGTGAAACCCCATCTCTACTAAAAATACGAAAATTAGCTGGGCGTGGTGGCGTGCGCCTATAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGTTTGAACCCGGGAGGCAGACGTTGCAGTGAGCTGAGATCACACCACTGCACTCCAGCCTGGATAATAGAGCGAGACTCCGTCTCAAACAAAACAAAACAAAACAAAAACATGGGAGCCCCCAACTCCTGGGTTCCTGGGGGACAAGACCTACTCCTAGGTCCCTGAGGGAAATCAGGGTGGGACCAAATTCGCAGGTCCCTAAGCAGGTGTCTTTCTGGGACTGGGGTGGCGGTCCAAGCTGGACTCCAGAGGGGATGGGTCCTGACTGTGAAATCCCAGGATTTCCTGAGTCCTAGGGATATGGGTGGGGGGGCGGGGTGGCACATAGGGCTGGACTTCTAGGCCCCTGGGAGAAGGTAGCTTGGACCACAAGATCCCTAAAGATGGGGTCCACCTACTCTTGATTCAATGAGAGCGGGTGGGTAGTTCTAGAGGGGGCAGAAATCAATTTCTGGGTCCCTGAAAGGGGCAGGGCTTGGTCCCTGGGGACAGGTCCTGACTCGGGGAGGGAGGAGAAGGTAGGATCTCTGGTTTCTAAAGTGGGCTCCGGGCCGGGGACAGTGGCTTACGCCTGTAATCCCAGCATTTTGGGAGCCCAAGGCAGACGGATCACCTGAGGTCAGGAGTTCGAAACCAGCCTGGCCAACATGGGGAAACCCTGTCTCTACAAACAATATAAAAGTTAGCTGGGCATGGTGGTGCATGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTAAACCCGGGAAGCGGAGGTTGCAGCGAGCCGAGATCACGCCACTGCACTCCAGCCTGGGTGCCAGAGCAACTCCATCTCAAAAAATAAAAATAAAAAATAAAGTGGGCTCCAGTTTCCCAGGTGCTTGGGGGTGGGCAGGTTGGAGGCCAGAGATGGCTTCTACATCTTGACAGCAGGCAGGCTTCGAAGTGCTGGCATTCAGATGTGTCTCCTGCTGTTTCTGATTTACTGTCCCCCACCCCAG
Seq C2 exon
TTCATCGAAGCCCGGCTGGAGAAGCTCAACAAGGGGGAGGGCTTCTCAGATCAATTCGAGCAGGAGATCACTGGCTGCGGGGCCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000205744-DENND1C:NM_024898:15
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:
PF0345514=dDENN=FE(50.0=100)
A:
NA
C2:
PF0345514=dDENN=PD(5.9=12.9)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CCAGCCAGTGACCTTCAGTG
R:
CGCAGCCAGTGATCTCCTG
Band lengths:
182-1574
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)