HsaINT0080503 @ hg19
Intron Retention
Gene
ENSG00000129351 | ILF3
Description
interleukin enhancer binding factor 3, 90kDa [Source:HGNC Symbol;Acc:6038]
Coordinates
chr19:10781192-10781879:+
Coord C1 exon
chr19:10781192-10781284
Coord A exon
chr19:10781285-10781649
Coord C2 exon
chr19:10781650-10781879
Length
365 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
CTTAATTCTCACATCCCTAGCGT
3' ss Score
6.7
Exon sequences
Seq C1 exon
AGTTGAAGTATTGATAACACCAAGGAACTCTATCACAATTTGAAAAGATAAGCAAAAGTTTGATTTCCAGACACTACAGAAGAAGTAAAAATG
Seq A exon
GTAAGTTTGTTTTTGATCACAGATACTGTTTCTTCACTCATGTACAGAGATGTTTGTAGCCTTTTCCAAAGCATTTGCTTCCATTACCATTTTTATTAGCCCTTTTGGATTATAAAGCAATATTATCTATTCTGTATTCCATTCTGATAGTGTAGGAACGAAGTCAGTGCCCCATTACTCCCACTGCCCAGAGACAACAGCTTTTCAGTTTGCTTGTCCCTCCTTGGTTCTTCAGTTGTGCTCCTGCAGGCTTTGCTTTTACACACGAGCGATATAGCATCATTCTGAATTGTGCAGCTTAAAAGATGAACGTTGGGCTGCTTGCTCTCTTTACATCATTTTTAACTTAATTCTCACATCCCTAG
Seq C2 exon
CGTCCAATGCGAATTTTTGTGAATGATGACCGCCATGTGATGGCAAAGCATTCTTCCGTTTATCCAACACAAGAGGAGCTGGAGGCAGTCCAGAACATGGTGTCCCACACGGAGCGGGCGCTCAAAGCTGTGTCCGACTGGATAGACGAGCAGGAAAAGGGTAGCAGCGAGCAGGCAGAGTCCGATAACATGGATGTGCCCCCAGAGGACGACAGTAAAGAAGGGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000129351-ILF3:NM_017620:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.740
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0050214=Phycobilisome=PU(77.4=84.4)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTGAAGTATTGATAACACCAAGGA
R:
CCAGCCCCTTCTTTACTGTCG
Band lengths:
323-688
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)