HsaINT0112844 @ hg19
Intron Retention
Gene
ENSG00000162614 | NEXN
Description
nexilin (F actin binding protein) [Source:HGNC Symbol;Acc:29557]
Coordinates
chr1:78407708-78409578:+
Coord C1 exon
chr1:78407708-78407893
Coord A exon
chr1:78407894-78408145
Coord C2 exon
chr1:78408146-78409578
Length
252 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
ATGCATTTATTTTAATACAGAAA
3' ss Score
4.08
Exon sequences
Seq C1 exon
GAAGATGATGTTGATGTTAGGCCTGCAAGAAAAAGCGAGGCTCCATTTACTCACAAAGTGAATATGAAAGCTAGATTTGAACAAATGGCTAAGGCAAGAGAAGAAGAAGAACAAAGAAGAATTGAAGAACAAAAGTTACTACGCATGCAGTTTGAACAAAGGGAAATTGATGCAGCACTACAAAAG
Seq A exon
GTACCAGGCTTATGTATCCTTTATTTTCCAAAGATGCCCTCTTAAAACCCATAGTTTTATAATTAGGTAGGTTAAAAAAATGTTTTAATGGTTTTCTTTCAAGTCACTGGAATGTACTGTTAAGTACACTTTGTAGTAGGCACACTTGTATGTTCTTTACTTAAAAAAAAAAATTTCATTTCAAAATTGTTACTAAATCGCTGCCCTGAAAATACTATAAATGCCAACCTGAATGCATTTATTTTAATACAG
Seq C2 exon
AAAAGAGAAGAGGAGGAGGAGGAAGAAGGTAGCATCATGAATGGCTCCACTGCTGAAGATGAAGAGCAAACCAGATCAGGAGCTCCATGGTTCAAGAAGCCTCTTAAAAACACATCAGTTGTAGACAGTGAGCCAGTCAGATTTACGGTTAAAGTAACAGGAGAACCCAAACCAGAAATTACATGGTGGTTTGAAGGAGAAATACTGCAGGATGGAGAAGACTATCAATATATTGAAAGGGGAGAAACTTACTGCCTTTACTTACCAGAAACTTTCCCAGAAGATGGAGGAGAGTATATGTGTAAAGCAGTCAACAATAAAGGATCTGCAGCTAGTACCTGTATTCTTACCATTGAAAGTAAGAATTAATCACTCTTTTTATCTTTTATTCTATTAATTTTTTTTTCCTTAAAATCACTTTTCTTCTTCTCTTTTTTAGCTGATGACTACTAGCTCCCCTCCCCTCTCCCTGGAACTTTCTCTTTCACTCCAACTTTCTTACTACATCCATCTTTTCTGTGGCGGGGCCAAAAAAGGAAACCAGGAGTGCCACTATGCTGACTTCTTATTCCTTTTCATAACAGTCTTCAAAGCACAGCTCATCTAAAGAATGCCTACTTCTTTTCCAAATAAGCATCAGATTTATCGCCTATTATGCAGTAACAGTCAATAAAATGTACTTATGGGGGGGAATTACTCAATTATTCTATCAGAACCTATTATAAAGACTGTATTTCCCATAGACGTTTACAGCAACTATGTTTAAAAAACAAAAACAAAAAAAAAACACACAAACCTAAGTAGAATACATTATTTTGCATGAAGGAATGTCATTTCTGAGCTTTTTACACCTAAAATTAGGCTGAAATAGCTGAGATAATTAATTTGGAACCTATCAATTTGAGTGGACTTTTTCTTTAGTAGTACACCATTTTGGTTGTTGTAGTTTCAAAGTCTTTCTGAAGCAGATATATTGGGATTGGAGCGGGGTGGGGAAAACTGTCACTCCTTTCAGAGGAAAAGGGGAGGAGCATGGAGAAAAACAAAAATTAAAGGACTTAAAGAATGGCTATACAGTGTTGAGTGTTGAGGATATTAAACATGTTATTTTTCAAACGTATGTAATATATATTAAATTTATAAAGCAAATTTATGTTGTGATCTTGCCTGAACAAATTATATTTTAATGAAAAAACTTTCTATTAATAGTTCACGCAAGAGAAAACACTTTCAACATAGTCGAAGGCTTCAAGATCTAAGTGTATCAGACTTAGGGAAAAAGTGGCACAACCTTCGATTTAAAATTCTAGTCTTTAAAATGAGTTTGTAAATAATTAGCTATTACGTTCTATTAAGTTGTTTTATATTTTAATTTTCTGGAAGACAATTTTATTTTACAACGTGAACCCAAATAAAGTAACTTCTGTATTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162614-NEXN:NM_001172309:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.818 A=NA C2=0.390
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0767911=I-set=WD(100=73.2)
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:
GCGAGGCTCCATTTACTCACA
R:
TCTGACTGGCTCACTGTCTACA
Band lengths:
293-545
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)