HsaINT0140703 @ hg38
Intron Retention
Gene
ENSG00000080345 | RIF1
Description
replication timing regulatory factor 1 [Source:HGNC Symbol;Acc:HGNC:23207]
Coordinates
chr2:151468000-151468551:+
Coord C1 exon
chr2:151468000-151468146
Coord A exon
chr2:151468147-151468473
Coord C2 exon
chr2:151468474-151468551
Length
327 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CTCTCCTTTCTTCTATCTAGCAT
3' ss Score
8.94
Exon sequences
Seq C1 exon
GTTCGCCGTGTCTCCTTTGCAGATCCAATATACCAAGCAGGATTGGCAGATGACATTGATAGACGGTGCTCTATTGTTAGGTCCCATTCTTCCAATAGTTCTCCCATAGGAAAAAGTGTTAAAACTTCTCCTACTACACAATCTAAG
Seq A exon
GTAAGCTATAGGCTTTAAAATATACATATATGTATACCGACACAGAATTACATGTACATGATGTGTCATAAAATGAACTATATATGTGAAAAACTTCTTCCTTGGTTTAAAATATATTCTTTTGTCTGGTACACGGTAAGCAGAAAGGAAGAGAAGCAGAAAGGTAAGAGGCAGTAATGATCCAGCAAGTAATTGATTAGGTAGTAGATTACTCTTTTTATGTTTTTTGAACTTTTAAAGAAATGATTGCAGTCTAAGTTGTAAAAATTGTGAAATTATAGTCATCTAGGGTTCTGAGTGTTTTTTTCTCTCCTTTCTTCTATCTAG
Seq C2 exon
CATAATACCACTTCAGCCAAAGGATTTCTGTCCCCAGGATCACGTAGCCCTAAATTTAAGAGCTCAAAGAAGTGTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080345:ENST00000243326:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=0.506
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CCGTGTCTCCTTTGCAGATCC
R:
CTTCTTTGAGCTCTTAAATTTAGGGC
Band lengths:
214-541
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