HsaINT0059727 @ hg19
Intron Retention
Gene
ENSG00000141971 | FAM125A
Description
family with sequence similarity 125, member A [Source:HGNC Symbol;Acc:25153]
Coordinates
chr19:17534307-17534608:+
Coord C1 exon
chr19:17534307-17534426
Coord A exon
chr19:17534427-17534501
Coord C2 exon
chr19:17534502-17534608
Length
75 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTGAGTCATCCCACCTCCAGTAA
3' ss Score
5.36
Exon sequences
Seq C1 exon
GGACATGGGCGGCTTTGCCATCTGGTGCAAGAAGGCCAAGGCCCCGAGGCCAGTGCCCAAGCCCCGAGGTCTCAGCCGGGACATGCAGGGCCTCTCTCTGGATGCAGCCAGCCAGCCAAG
Seq A exon
GTGAGTCCTCAGGCACCGGAGTGGGGGTGGCCGTTGTGGGAGGATGAGGCTTAACCTGAGTCATCCCACCTCCAG
Seq C2 exon
TAAGGGCGGCCTCCTGGAGCGGACAGCGTCAAGGCTGGGCTCTCGGGCATCCACTCTGCGGAGGAATGACTCCATCTACGAGGCCTCCAGCCTCTATGGCATCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141971-FAM125A:NM_138401:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.341 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF102404=DUF2464=PU(31.1=97.4)
A:
NA
C2:
PF102404=DUF2464=PD(4.4=16.2),PF102404=DUF2464=PU(42.2=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGGTGCAAGAAGGCCAAG
R:
TCATTCCTCCGCAGAGTGGAT
Band lengths:
170-245
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)