HsaINT0019657 @ hg19
Intron Retention
Gene
ENSG00000165863 | C10orf82
Description
chromosome 10 open reading frame 82 [Source:HGNC Symbol;Acc:28500]
Coordinates
chr10:118424272-118425337:-
Coord C1 exon
chr10:118425119-118425337
Coord A exon
chr10:118424459-118425118
Coord C2 exon
chr10:118424272-118424458
Length
660 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGCA
5' ss Score
-1.95
3' ss Seq
GCCATGGTGTCTTTTTACAGAAT
3' ss Score
8.73
Exon sequences
Seq C1 exon
GCTTTGTGCCATTCCTCAGCTGCCAAGGAATGTCCAAGGAGGATGACATGAACCACTGTGTGAAAACCTTCCAGGAGAAAACACAGCGCTATAAAGAACAGCTGCGGGAATTGTGCTGCGCAGTGGCCACTGCCCCGAAACTGAAACCTGTCAACTCCGAGGAGACGGTCCTGCAGGCCCTGCACCAGTACAATCTGCAGTACCACCCCCTGATCCTGG
Seq A exon
GTAGCAGCGCCCTGAAACCATTTCCCCTCACCCCTGGTCACCCCTGCAGATTCTCATAGGCCAGCTGAGCTGCCCCATAGCACCCAGAATCCCGCACCGTTCCAAATCCCAGGGGTCAGCACCAAATGCAAAGGCTCCATTTCTTAAAATGAGAAAGACACATTTCTTTTTCTTTCTTTCTTTTTCTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTTGCCTAGGCTGGAGTGCAGTGGTGTGATCTCGGCTCACTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCAGCCTCAGCCAAGTAGCTGAGACTACAGGTGCATGCCACCATGCCTGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGCCGAGGGTGGTCTCAAATTCCTGACCTCAGGTGATCTGCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACAGAGGCTGGCCAGAAAGAAACATTTCTAGGGGAGGGGGCACAGTCCTGGTTAGGGAAGAGGGTGCTGGTCTGAGAACTAGGAGACCCTAGGCAAGTCACAAGTTTTCAGGCCTCAGCTTCTGGGTCAGTGGAAAACATTTTTTAGTTGCTTTCTCTGTGCCATGGTGTCTTTTTACAG
Seq C2 exon
AATGCAAATATGTAAAGAAACCTCTCCAGGAGCCCCCGATCCCTGGCTGGGCAGGCTACCTGCCGAGAGCCAAGGTCACTGAATTTGGCTGTGGCACGAGATACACTGTCATGGCCAAAAACTGCTACAAGGACTTCCTGGAGATCACGGAGAGGGCCAAGAAGGCACATCTGAAACCATATGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165863-C10orf82:NM_144661:3
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=0.008
Domain overlap (PFAM):
C1:
PF048718=Uso1_p115_C=WD(100=70.3),PF097894=DUF2353=PU(84.8=90.5)
A:
NA
C2:
PF097894=DUF2353=PD(13.9=17.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAAGGAATGTCCAAGGAGG
R:
TCCGTGATCTCCAGGAAGTCC
Band lengths:
349-1009
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)