HsaINT0080497 @ hg19
Intron Retention
Gene
ENSG00000129351 | ILF3
Description
interleukin enhancer binding factor 3, 90kDa [Source:HGNC Symbol;Acc:6038]
Coordinates
chr19:10793213-10793938:+
Coord C1 exon
chr19:10793213-10793380
Coord A exon
chr19:10793381-10793800
Coord C2 exon
chr19:10793801-10793938
Length
420 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCTTTTCTGTTTTCCCTGAGAAC
3' ss Score
0.39
Exon sequences
Seq C1 exon
GTGTTACAGGACATGGGCTTGCCGACGGGTGCTGAAGGCAGGGACTCGAGCAAGGGGGAGGACTCGGCTGAGGAGACCGAGGCGAAGCCAGCAGTGGTGGCCCCTGCCCCAGTGGTAGAAGCTGTCTCCACCCCTAGTGCGGCCTTTCCCTCAGATGCCACTGCCGAG
Seq A exon
GTGAGCACATGGTGGGCGCTGGGAGTGACTGCCTGGACAGAGCAGGCAGCCATGTGTCCTGTCAGTGAGGTGGTTACTGGTCCTTGTTAATTTGCCCCAAAAAGTGGACCTTTCAGGCCAGAAGTCCGCACAGGAAGCTGGGTGCTGCCCTCCGAGCCGTGTCGGGGAGGGCCTTGTGGATGTTGTCCCAGCATCCTATAGGCTACACTGGGGTGGCCTTGGGTTGATAACGTGCTGTTCAGAGGGGAGGCACAGGAAGGGGGCACATTGCTGGAAGGCCCTCACTAGAGTCAGTGGAGACTCTGGCAAGGGCTGGCAGTGTATGAAGAGCAGAGGCCCTGCCTCAGTCCTGCCACTCCTCCCATGTGACTGGAATGCCCATAGCTGAGTTTGTCGGTCTTCTTTTCTGTTTTCCCTGAG
Seq C2 exon
AACGTAAAACAGCAGGGGCCGATCCTGACAAAGCACGGCAAGAACCCAGTCATGGAGCTGAACGAGAAGAGGCGTGGGCTCAAGTACGAGCTCATCTCCGAGACCGGGGGCAGCCACGACAAGCGCTTCGTCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000129351-ILF3:NM_017620:13
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.911 A=NA C2=0.852
Domain overlap (PFAM):
C1:
PF0003520=dsrm=PD(6.2=7.1)
A:
NA
C2:
PF0003520=dsrm=PU(50.8=69.6)
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:
TGTTACAGGACATGGGCTTGC
R:
CTCCATGACGAAGCGCTTGTC
Band lengths:
305-725
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)