HsaINT0101826 @ hg19
Intron Retention
Gene
ENSG00000162591 | MEGF6
Description
multiple EGF-like-domains 6 [Source:HGNC Symbol;Acc:3232]
Coordinates
chr1:3416360-3417328:-
Coord C1 exon
chr1:3417197-3417328
Coord A exon
chr1:3416489-3417196
Coord C2 exon
chr1:3416360-3416488
Length
708 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
GCCGGGGCTGCATATCTCAGAGT
3' ss Score
3.03
Exon sequences
Seq C1 exon
CCTGTGATACTGGGCACTGGGGACCTGACTGCAGCCACCCCTGCAACTGCAGCGCTGGCCACGGGAGCTGTGATGCCATCAGCGGCCTGTGTCTGTGTGAGGCTGGCTACGTGGGCCCGCGGTGCGAGCAGC
Seq A exon
GTGAGTCCCGGCCCTGCCTTTGGCTGCCACCCTCCTGAGTGCGCACACGCACACATATGCACACGTGCACACACACAAAGCCTTTGACCGTACTCCCTCCTGCACGCACACACACGAAGCCTTTGGCCGCGCCCCCTCCTGTGCGCGCACACACCCACCAAAACGTGCAGGCACGCACATGCGCACTGCGGCTGGGCCCTGGCCTGGCTTCCTCTGCCTTTCCTGAGCTTTCCCAGCCCCCACTGCTCTGCTTCGCAGCCTGGACCAAGGTCCCACCCTCTCACCGACCTGCACCAGGCTCACTTGGAGCCGCAGCAGGAGGGGGCAGGGTCTGTCCCCCACTGTGGGAGGCCTGGCACCTGGGGGATGGAGAAGGGGTCTGCTTAGGACTGAGGCTGGTATCCCTCAGTGTGTGCCCCCGAGGCTTGGTTGGTGGAATCGGGGGAGGCCTGGGTTGGGCGTCCTACGGACAGCCCCTGGGGAGGTTCCCATCCCTAAAGCTGATGCCTGGAGCCCCCTCAAGCCTCCCATGGCCCCACCTGGGTGGGGGATGAAGCATGTGAGTGAGCCCAGTCTCCCTTGGGCAGGAAGGGGCTTCTCATGAGCCAGGCCTGTCCCACAGTCCTGGGGATGGCGGCAAGGCCCGGGCACGGCTGGGTCAGGCTCCTGGCCCTCTGGCTGACTGTGGGCCGGGGCTGCATATCTCAG
Seq C2 exon
AGTGTCCCCAGGGCCACTTTGGGCCCGGCTGTGAGCAGCGGTGCCAGTGTCAGCATGGAGCAGCCTGTGACCACGTCAGCGGGGCCTGCACCTGCCCGGCCGGCTGGAGGGGCACCTTCTGCGAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162591-MEGF6:NM_001409:21
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:
PF0005319=Laminin_EGF=PU(63.8=66.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.0=36.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATACTGGGCACTGGGGAC
R:
AGAAGGTGCCCCTCCAGC
Band lengths:
248-956
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)