HsaINT0112848 @ hg19
Intron Retention
Gene
ENSG00000162614 | NEXN
Description
nexilin (F actin binding protein) [Source:HGNC Symbol;Acc:29557]
Coordinates
chr1:78390873-78392296:+
Coord C1 exon
chr1:78390873-78390914
Coord A exon
chr1:78390915-78392098
Coord C2 exon
chr1:78392099-78392296
Length
1184 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
TTATCTATTTTATAAAATAGGAA
3' ss Score
7.04
Exon sequences
Seq C1 exon
ATTGAGGACATAAACAATACGGGAACTGAATCAGCATCAGAG
Seq A exon
GTAAACAGACATTTCCTTTAATGAAACATTCACCTAAAATTATCTGATTCACAAATTATCTTTTAGTATAAGAAAAAACTAAAAGAGCTTTTATTATTTTTATTATAAATGTAGAAATAACAAAAAAGTATGTTTTGCAAAGCAAGAGCATACTTTTGCACTTTCAAACACTATAGCTTAGTGTTTTTAAAGAAAAGTATGTTTTGCTTTCATAGTCAGGTTAGAAAGACAAGCCTTATTAGTCTCAGTTTGAGATACTCTGCCAAGACAACGTATTTTTTGAACTGTTACTAACAGCTGAGATTGTTGAACGCTAACATTTATAAAAAGGCAATTTTATTTTCATCATTTGTCTTCTTTCCTCAGAGTTCCTGAGAGTTTATGTTTTGGTTTTTATATAATAGTACAGAGTGCAGTATCTGTTACCAAGAAGAAATGTTCAACAACCACAAAAATTTTAGTCATCCCTTTTATCTAACAGAATAAGTTAAAAATCTTTCAATTTGATGGTGTGCCCAAAACTACAGCCCATAAATTGGGAGCAATTTTATCTCAGGGCCATGTGTTTCATTTCACCACTCTTCTTAGTTTTTAAAAAAGTCAGAGGCAACAACAGATTATATAATTAAAATGAATTAAATAATAATTTTAAAATATTTTAATACAATCAAATACCAGAGAGTTTATCTATAATATATATAAATGTTTAATAAATCACTTGGAAATACTGTGTTTTTTTCTCACTAAATACTGGTTTCATTAAGTATTTAAAAGCTTGCATAGAGAGAAAAATCATATGAGGAAACTTTTTTTTGTTTAAACTGAATCTATCCACCATCAAATTGATTTAGAGTATATTCACATGCACATTTTGTGGATTAGTGCACAAATAGCTTAATTCAGGCAATGTCACTGCAGTTTCGTTATCCAAACAGCTGTATTAACTCCATCTTCTAGGAAATAGAATGCTTCTTGAACCTCGTCAGCAATGGATTTCAGCAAGATTAACTCATAATGCACAAAGAATTTAGAGTAGGAGATATTTAATAATAATCTGTAAAAAAATGTTCTTCATAATAACATTGATGACAGTGTAATGAAATTCACCTATGATGGAGGTAAAGTCCCATGAAACCCAATTTTGATTAAGAAGAAATAGGCTAATTATCTATTTTATAAAATAG
Seq C2 exon
GAAGGAGATGATTCACTACTTATAACTGTGGTACCTGTCAAATCATATAAAACATCTGGAAAAATGAAAAAGAATTTTGAGGATCTAGAAAAAGAACGTGAAGAGAAAGAAAGGATCAAGTACGAGGAAGATAAAAGAATAAGATATGAAGAACAACGACCATCTCTCAAGGAAGCAAAGTGTCTTTCATTAGTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162614-NEXN:NM_001172309:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.639
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ATTGAGGACATAAACAATACGGGA
R:
TAACTAATGAAAGACACTTTGCTTCC
Band lengths:
238-1422
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)