HsaINT0054576 @ hg19
Intron Retention
Gene
ENSG00000172889 | EGFL7
Description
EGF-like-domain, multiple 7 [Source:HGNC Symbol;Acc:20594]
Coordinates
chr9:139562693-139563125:+
Coord C1 exon
chr9:139562693-139562814
Coord A exon
chr9:139562815-139563008
Coord C2 exon
chr9:139563009-139563125
Length
194 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CCCCCTCTCCACCCCCGCAGCCG
3' ss Score
10.67
Exon sequences
Seq C1 exon
GCCACCCAGAGGAGAAGGCCACCCCGCCTGGAGGCACAGGCCATGAGGGGCTCTCAGGAGGTGCTGCTGATGTGGCTTCTGGTGTTGGCAGTGGGCGGCACAGAGCACGCCTACCGGCCCGG
Seq A exon
GTGAGCCAAGCCCTAGCCTGGGAGTGCTGGGGTGGGGGGACCGGGAGCCCTCAGCACCTCCTAGAGGCGGCCCTCAGCACCTGTCGGGGACTCCCTGGGGGCTCCTGCTGAGGGTCCTGCCCCGGCCACATGTTCCCATCATTCTTGGGTCCTGCTCTGGGACTCCTGGGCTGACCCCCTCTCCACCCCCGCAG
Seq C2 exon
CCGTAGGGTGTGTGCTGTCCGGGCTCACGGGGACCCTGTCTCCGAGTCGTTCGTGCAGCGTGTGTACCAGCCCTTCCTCACCACCTGCGACGGGCACCGGGCCTGCAGCACCTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172889-EGFL7:NM_201446:3
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=0.000
Domain overlap (PFAM):
C1:
PF075468=EMI=PU(0.1=0.0)
A:
NA
C2:
PF075468=EMI=PU(55.7=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCAGAGGAGAAGGCCAC
R:
GGTAGGTGCTGCAGGCCC
Band lengths:
235-429
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)