HsaINT0024269 @ hg19
Intron Retention
Gene
ENSG00000170085 | C5orf25
Description
chromosome 5 open reading frame 25 [Source:HGNC Symbol;Acc:24779]
Coordinates
chr5:175763723-175764149:+
Coord C1 exon
chr5:175763723-175763879
Coord A exon
chr5:175763880-175764064
Coord C2 exon
chr5:175764065-175764149
Length
185 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
CCATTTTACTATCTCTGCAGTCA
3' ss Score
7.75
Exon sequences
Seq C1 exon
AGAAATGTTCTTTACTACCATGGAAAGCCACCTTCTGCGCTGCAAAGTGTTAGAAATCATATTCCTCCACAGCTGTGAGACACCCACCCGCCTGCCTCTGTCTCTGGCCCAGGCCCTCTACTTTCTGAATAATTCTACGTCACTGCTCAAGTGTCAG
Seq A exon
GTACATTTTTTCCTGCCCAATTTCAGGCCTAGAGCACCTCTCTTTGCTCTAGGCCCGAACCCTTCCCATAGGATTTTAGCTTAAAACACAACTGTTTGAGCATTCTGTAAAGGTGAATTGAAAACTGTACAAAAATTTTAACTGGGGAAGGCATTTATTATCAATCCATTTTACTATCTCTGCAG
Seq C2 exon
TCAGATAAAAGCCAGTGGCAGACTTGGGACGAATTGGTTGAGCATCTGCAGTTTCTGCTGTCCAGTTATCAACATGTTTTAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170085-C5orf25:NM_198567:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGTTCTTTACTACCATGGAAAGCC
R:
AAAACATGTTGATAACTGGACAGCA
Band lengths:
234-419
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)