HsaINT0131464 @ hg38
Intron Retention
Gene
ENSG00000138738 | PRDM5
Description
PR/SET domain 5 [Source:HGNC Symbol;Acc:HGNC:9349]
Coordinates
chr4:120816453-120816924:-
Coord C1 exon
chr4:120816832-120816924
Coord A exon
chr4:120816575-120816831
Coord C2 exon
chr4:120816453-120816574
Length
257 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTTG
5' ss Score
-0.23
3' ss Seq
CTTTGCTGGTTGTCTTGTAGTTT
3' ss Score
8.04
Exon sequences
Seq C1 exon
TGTTCTTCAGTGCACAGCGAAAAGCAGTCTAAAGGAGTCTTCGCGAAGTTTTCAGTGCTCTGTTTGCAATTCTTCCTTCAGTTCAGCATCGAG
Seq A exon
GTTTTGTGTCTGAGTTATGAAATGGCTGTTATATAATTGTGGGTCATTTTTTGCATGCATACTTTCATGCTTCTTAGTAATTCAGTTTCACATACCTACAGAATTTAAATGCTTTTCTTCTTACCTGCATAGGTAATGCATGGAATGACCCCGAAACTCTACTAGGGAGCATGTATTACAAAATCTTGCTGATGTTTGAGTTTTGTAGGTATGTCTTCACCATTTCTTCCTGTTCCGCTTTGCTGGTTGTCTTGTAG
Seq C2 exon
TTTTGAGCAGCACCAGGAGACTTGCCGGGGGGATGCCAGGTTTGTGTGCAAGGCTGACAGCTGTGGAAAGAGGCTGAAGAGCAAGGATGCCCTGAAAAGACACCAGGAAAATGTCCACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000138738:ENST00000264808:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.134
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=PD(17.4=12.5),PF0009621=zf-C2H2=PU(60.9=43.8)
A:
NA
C2:
PF0009621=zf-C2H2=PD(34.8=19.5),PF0009621=zf-C2H2=WD(100=63.4)
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:
TGTTCTTCAGTGCACAGCGAA
R:
AGTGTGGACATTTTCCTGGTGT
Band lengths:
214-471
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