HsaINT0112112 @ hg19
Intron Retention
Gene
ENSG00000183091 | NEB
Description
nebulin [Source:HGNC Symbol;Acc:7720]
Coordinates
chr2:152388306-152390060:-
Coord C1 exon
chr2:152389956-152390060
Coord A exon
chr2:152388411-152389955
Coord C2 exon
chr2:152388306-152388410
Length
1545 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TCTTCTCTTCCACAATTTAGATC
3' ss Score
7.69
Exon sequences
Seq C1 exon
AGAAAATATAAATCTAGTGCCAAGATGTTTCTGCAACATGGATGTAATGAAATTCTGCGTCCAGATATGTTGACTGCTCTCTACAATTCGCATATGTGGAGCCAG
Seq A exon
GTAATGTCTGATGGGATGTGAAGAAGGAGGTTTAGAAGAAGTCTTGGATGCATTCCCTTGTATGCTTTCATTGATTTCCTCTTCCACTCCCTGCCCATGCTGGCTTCATATGGTAAAGCTATGTAAATATTCATTCCTTGTAAATGATCTCTGAATGTGGCCAAAGGTGATGGGACAGTGGTCATCCGTACATCATCTGACACTTTCAGAACTCTTAATAAAATTAACTGATTCTTTCAAGTGTTATTTCCAAAGTGGTATAACATTAATTTATACTTTTCAGTATTTGCCTCAAAGAAATAGATTCCTTAGAGATTGAAGATAGTAAGTAGATTCAACAGCATGTAAAAGGTCTGAATATTTAATGTTTTCATCTAATGTGTCTCTTGTTCAATTATCACTACAACTGTTGCAGGGAGATGAGGATTACCGTGCAGCTCTATGAATATTGTATATATTCATGGCGCCTCTTGACTTTGATGCTGAATTGCTAGGTTATTTCCAGCACATCTGATCCCACACACACAGGTTAACAGTGTCTCTGATAATAATGCCTTTTTAGAAGGCCAACTGAAGCATGCACTTTCCAGCACATGCTGAAAGGTAAATTTGATGCAGCAATAAACAGTGATAATTGGTAACTACCAGACACAATGTTAGTAATAATACCATTTTTCCCAGACCAAAAAAAAAAAGTTAATTGAGCTTTCCTCTTAGCAACTTGTTTTGTCATTTTAGTTTACCATGAAATCAATATGTGAAATGAGGAGGTTAAGCTCCAATTAAGAGCTTAACCTCCTCATTTCTCCTCCTATAAATATCCTGTTTGCCTGAACTTCCTCCTTTGTCCTTATATGATCCTCAAATAGTTGTGCATGAAATTTTATGGTGCTCTCTGTATCTGTCCTGCTTAAAACAGCTTCTGTGCATGAAAATAATTATGACTTGAAAATTGCAAAAACAAATGAATTTTTTAAAATGATAAATACTTCATATATACTCATTCTTTATTTTACATCCCTGTTTCATCTTTGACATGGAAAAATGCCTTTGGAGATTGTACATGTTCAATACAATATGTTATGAGTAAAACAATATTTGTCAGACTCCAGAGAACAGGTTCTAGTCCTGCTCTGAGATTTGGTCTAAATGTGCCCTTGGGTCAGTCTCGTAACCTCTGGGGGCCTCCGAGTACATGTGTATAAAACATATTGGAACTTGGGAGGCTGAGGCAGAAGAATTGCTTGAATCTGGGAGGTGGAGGTTGCAGTGAGCCGAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGTAAGACTCCGTCTCGGAGGGAAACAAAAAAAGGAAATTATTAGTAGTAGTATCATCTGCTCACTCCATTTCACTTTTGCTATCAGACACAAATTTATAGTAAACATTTCCAGTTAGGAATTAAAGAGAAAGCTAGATACCATCTCCCACTCTGGTGTTTCAAGAGGACAATTAGATACCTTAAAGCCCACTCTACAACTTCTTAGAGCTCTTTCTTCTCTTCCACAATTTAG
Seq C2 exon
ATCAAATACAGGAAAAACTATGAAAAATCAAAGGACAAATTTACCTCAATTGTGGATACTCCAGAACACCTGCGTACTACAAAAGTCAACAAACAAATCAGCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183091-NEB:NM_001164508:143
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(35.7=28.6),PF0088013=Nebulin=PU(53.6=42.9)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
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:
TCTAGTGCCAAGATGTTTCTGCA
R:
ATCGCTGATTTGTTTGTTGACT
Band lengths:
198-1743
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)