HsaINT0061434 @ hg19
Intron Retention
Gene
ENSG00000148343 | FAM73B
Description
family with sequence similarity 73, member B [Source:HGNC Symbol;Acc:23621]
Coordinates
chr9:131830052-131830611:+
Coord C1 exon
chr9:131830052-131830150
Coord A exon
chr9:131830151-131830476
Coord C2 exon
chr9:131830477-131830611
Length
326 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CCCGGGGGCACCCTCTGTAGGTG
3' ss Score
5.98
Exon sequences
Seq C1 exon
AGCCCCAAAGGCTTCCTGGAGAGCTACGAGGAGATGCTGAGCTATGCCCTGCGGCCCGAGACCTGGGCCACAACACGGCTGGAGCTGGAGGGCCGAGGG
Seq A exon
GTGAGTTGCTTTGTGCTGAACCCCGACATCCCGGGCTCCCCTGCATCTGAGCAGCAAGGGGGTTCTTGTGCCGAGCTCTAGCTCAGTTCCAAGCGGCTGAGACGGTTCCATCACTGCTCATAGTCCCCGGTTCCTGCCCTGCCCCAGGCCAAGGCAGAGGGAGGAATGGCCTCAGCTACACCCGTTGCACAGCAGAGCGGGAAAGACGTGTCCCCCCCACGTGTGCTCATGCCCTGGACCCCAGCTTCAGTCTCCCCATCTGGAAAGTGGCCCCGAGGCTCCGGCAGTGCCCCCATGCATGAGCCTCCCGGGGGCACCCTCTGTAG
Seq C2 exon
GTGGTATGCATGAGCTTCTTCGACATCGTGCTGGACTTCATCCTCATGGACGCCTTCGAGGACCTGGAGAACCCTCCGGCCTCGGTGCTCGCCGTCCTGCGGAACCGCTGGCTGTCAGACAGCTTCAAGGAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148343-FAM73B:NM_032809:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.052 A=NA C2=0.128
Domain overlap (PFAM):
C1:
PF102654=DUF2217=FE(42.7=100)
A:
NA
C2:
PF102654=DUF2217=FE(8.2=100)
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:
CCAAAGGCTTCCTGGAGAGCT
R:
CGTCTCCTTGAAGCTGTCTGAC
Band lengths:
230-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)