HsaINT0112846 @ hg19
Intron Retention
Gene
ENSG00000162614 | NEXN
Description
nexilin (F actin binding protein) [Source:HGNC Symbol;Acc:29557]
Coordinates
chr1:78383645-78383958:+
Coord C1 exon
chr1:78383645-78383723
Coord A exon
chr1:78383724-78383809
Coord C2 exon
chr1:78383810-78383958
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTTTTTTCATATATTTTTAGGAA
3' ss Score
10.3
Exon sequences
Seq C1 exon
ATTAAAGAAATGCTTGCTTCTGATGATGAGGAAGATGTATCTTCTAAAGTAGAAAAGGCTTATGTTCCAAAATTAACAG
Seq A exon
GTAAGAAGCTTGAGGGGTAAATAGTAAATTAAATTGCAAAATAGAAACATAACCAAGTATCAAACTTTTTTTTCATATATTTTTAG
Seq C2 exon
GAACTGTGAAGGGTAGATTTGCTGAAATGGAGAAACAAAGACAAGAGGAACAAAGGAAGAGAACGGAGGAGGAACGAAAACGCAGAATTGAGCAGGATATGTTAGAAAAGAGGAAAATACAGCGTGAATTAGCAAAAAGGGCTGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162614-NEXN:NM_001172309:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.815 A=NA C2=0.893
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTTGCTTCTGATGATGAGGA
R:
ATCCTGCTCAATTCTGCGTTT
Band lengths:
167-253
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)