HsaINT0046729 @ hg19
Intron Retention
Gene
ENSG00000205744 | DENND1C
Description
DENN/MADD domain containing 1C [Source:HGNC Symbol;Acc:26225]
Coordinates
chr19:6467218-6468452:-
Coord C1 exon
chr19:6468245-6468452
Coord A exon
chr19:6468130-6468244
Coord C2 exon
chr19:6467218-6468129
Length
115 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TCCCTATCCATCTCACCTAGCCC
3' ss Score
5.38
Exon sequences
Seq C1 exon
GACACCCCCACTGAGCCCTGAGGATGAGGGGTGCCCGTGGGCAGAAGAAGCTCTGGACAGCAGCTTCTTGGGGTCTGGAGAAGAACTGGATTTGTTGAGCGAGATTCTGGACAGTCTTAGCATGGGAGCCAAGAGCGCAGGCAGCCTGAGACCGAGCCAGAGTTTAGACTGCTGTCACAGAGGAGACCTGGACAGCTGCTTCAGCCTG
Seq A exon
GTGAGAGCCTCGCCCACTCCCCCAACCCTACCCCAAGTCTTCCCCTAATGGTCCATCCAACTTGCCAGCCCCTCTGCCATCTAAAAGCCACAACTTCCCTATCCATCTCACCTAG
Seq C2 exon
CCCAACATACCAAGATGGCAACCAGACGATAAGAAACTACCAGAGCCGGAGCCCCAGCCCCTTTCCCTGCCATCCCTGCAAAATGCCTCGTCTTTGGATGCCACCAGCTCTTCAAAGGACTCCAGGTCCCAGCTGATACCCTCAGAGTCCGACCAAGAAGTCACGTCTCCATCCCAGTCCTCAACAGCTTCTGCAGACCCAAGCATCTGGGGGGACCCCAAACCCTCTCCTCTCACAGAGCCCCTAATTCTTCATCTCACCCCTTCCCACAAGGCAGCTGAAGATTCTACAGCCCAGGAAAACCCCACTCCCTGGCTCTCCACTGCACCCACTGAGCCCAGCCCTCCAGAAAGCCCCCAAATTCTGGCCCCCACAAAGCCCAACTTTGATATAGCCTGGACGTCCCAGCCCCTTGATCCTTCCTCAGACCCCAGTTCTCTGGAGGACCCCAGAGCCCGGCCTCCCAAAGCCCTGCTGGCAGAGCGCGCTCACCTCCAGCCACGGGAGGAACCAGGAGCCCTGAATTCCCCTGCTACACCCACCAGCAACTGTCAAAAGTCCCAGCCCAGCAGCCGGCCCAGAGTCGCTGATCTTAAGAAGTGCTTTGAGGGTTAAGAATCAGGGGTCCAAGAGAGACCCCAGTCCCTCAATAAAGCCACAAGAGCCCAAAAAAGCTGGTTTTTTTCCTGGTGAATTTCTCTGGTGCCCTCACTCTGCTCGGAAATCCATCCCACCCACCTCTGTCCCTCCAAGGGCAGCCTCTCTAACTGGCTCCTAGCAGGGAATTCCAGGAAGCCTCCTGGTCTTCTAGAATCCTGGCAACCTTACAATTCCTCTCGGCATTTGTCACTTCCATCTCAGCTAATGCACCCACCAGCTCAAACACACCAATAAAGCTTTTGTTACATCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000205744-DENND1C:NM_024898:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.600 A=NA C2=0.995
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGGGGTCTGGAGAAGAACTGG
R:
AAGAGCTGGTGGCATCCAAAG
Band lengths:
252-367
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)