HsaINT0059724 @ hg19
Intron Retention
Gene
ENSG00000141971 | FAM125A
Description
family with sequence similarity 125, member A [Source:HGNC Symbol;Acc:25153]
Coordinates
chr19:17531122-17531443:+
Coord C1 exon
chr19:17531122-17531220
Coord A exon
chr19:17531221-17531346
Coord C2 exon
chr19:17531347-17531443
Length
126 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TGTCCCCCTTCCACCCCCAGAAC
3' ss Score
12.01
Exon sequences
Seq C1 exon
ATCTCCTGCACCGTCGAGGGGGCACCCGCCAGCTTTGGCAAGAGCTTCGCGCAGAAATCTGGCTACTTCCTGTGCCTTAGTTCTCTGGGCAGCCTAGAG
Seq A exon
GTAAGAGGTGCCCACCTTCGGAACCACCAGGGTCTGCCCACCTCCCCTGCCCATTCACGGTGCCCTATGCCAGGTGCGCTGTCCCCGCTGCTAGCCACCCTCGCCGTGTCCCCCTTCCACCCCCAG
Seq C2 exon
AACCCGCAGGAGAACGTGGTGGCCGATATCCAGATCGTGGTGGACAAGAGCCCCCTGCCGCTGGGCTTCTCCCCCGTCTGCGACCCCATGGATTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141971-FAM125A:NM_138401:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF102404=DUF2464=FE(12.7=100)
A:
NA
C2:
PF102404=DUF2464=FE(12.7=100)
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:
CTCCTGCACCGTCGAGGG
R:
TGGAATCCATGGGGTCGCAG
Band lengths:
194-320
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)