HsaINT0112147 @ hg19
Intron Retention
Gene
ENSG00000183091 | NEB
Description
nebulin [Source:HGNC Symbol;Acc:7720]
Coordinates
chr2:152349867-152350381:-
Coord C1 exon
chr2:152350289-152350381
Coord A exon
chr2:152349960-152350288
Coord C2 exon
chr2:152349867-152349959
Length
329 bp
Sequences
Splice sites
5' ss Seq
TCGGTATTT
5' ss Score
4.52
3' ss Seq
TGCTCTTTTGGCTTCCCTAGGTA
3' ss Score
11
Exon sequences
Seq C1 exon
GTGTTATACAAAGAGAACCTGGGGAAAGCAACCCCCACACCCTTTACTCCTGAGATGGAAAGAGTGAAACGCAATCAAGAAAACTTTAGCTCG
Seq A exon
GTATTTTAGAAAGGAAAAATAAATCCTTAAAATCTTAACAGCCCTGGCAAACATGGTTGTACCACTAATTTATCTTACAGTTTTTCCAAAACTTTTGTGTATCTTTAAAAATTCTTCCTTGTCCACTTAAAAACAACAAACCAACCCCACGAGGTCACAGTGATTTTACTTCTTTCTTAAACTTTTGCTTCCTACCGTAACATTTTAATAGCTTTACCTTCAGTGTGATATAACTGAGCCATAACATGAGCCATAACACCAGCTAAGTGATGATTTTCAGACCTGGTTTTCTGCTGTCTGATGCCTAGATGCTCTTTTGGCTTCCCTAG
Seq C2 exon
GTATTGTACAAAGAGAACATGAGAAAAGCAACTCCGACACCTGTTACTCCAGAGATGGAGAGAGCTAAGCGCAACCAAGAAAACATTAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183091-NEB:NM_001164508:175
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.975 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=35.5),PF0088013=Nebulin=PU(55.2=51.6)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=35.5),PF0088013=Nebulin=PU(55.2=51.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTATACAAAGAGAACCTGGGGA
R:
GCTAATGTTTTCTTGGTTGCGCT
Band lengths:
183-512
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)