HsaINT0133598 @ hg19
Intron Retention
Gene
ENSG00000095261 | PSMD5
Description
proteasome (prosome, macropain) 26S subunit, non-ATPase, 5 [Source:HGNC Symbol;Acc:9563]
Coordinates
chr9:123593609-123594223:-
Coord C1 exon
chr9:123594110-123594223
Coord A exon
chr9:123593738-123594109
Coord C2 exon
chr9:123593609-123593737
Length
372 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
ATATTTTCTTTCGTTATAAGGCT
3' ss Score
6.72
Exon sequences
Seq C1 exon
ATTGGAAGAATTGTTGAAAATTCTGATGCTGTTACTGAGATTCTAAATAATGCTGAATTACTAAAACAAATTGTTTATTGCATTGGTGGAGAGAATCTATCTGTAGCAAAAGCG
Seq A exon
GTGAGTCTACTAGAATCATTGACTTAAATGTGCAGAGACATCGGTGTCCCAAAAGATAAAGAAAGGCCTTCTGAATTGAGAGGTGAAGGTTTAGAATGGATGATTTGCGTAATGGAATTTACAACTTCATATGGATTGTGTAAAATAAATGGTTGTCAAGTAAATACTAGTAAACCCCTTTCATTTTCTAGGATATACATATCTACAGTATCCATCATAATTCTATGGGGGATACCTTGCGTCTTTTCCAATTATAAATAATAGCTAAAACATGGGCAAGGTGCATTCCATGCACTATTTTTACATCACTCTTATGAAGTAGATAATAACCTGCATTTTGGGAATGTAAGAGATATTTTCTTTCGTTATAAG
Seq C2 exon
GCTATCAAATCCCTGTCAAGAATATCACTAACCCAAGCTGGACTGGAGGCTTTATTTGAAAGCAATCTGCTGGATGATTTGAAAAGTGTAATGAAAACAAATGACATTGTTCGATACAGGGTGTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095261-PSMD5:NM_005047:3
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=0.000
Domain overlap (PFAM):
C1:
PF105084=Proteasom_PSMB=PD(19.4=87.5)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(8.3=100)
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:
GAATTGTTGAAAATTCTGATGCTGT
R:
ACACCCTGTATCGAACAATGTCA
Band lengths:
231-603
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)