HsaEX0049953 @ hg19
Exon Skipping
Gene
ENSG00000138738 | PRDM5
Description
PR domain containing 5 [Source:HGNC Symbol;Acc:9349]
Coordinates
chr4:121613070-121675793:-
Coord C1 exon
chr4:121675708-121675793
Coord A exon
chr4:121631464-121631568
Coord C2 exon
chr4:121613070-121616430
Length
105 bp
Sequences
Splice sites
3' ss Seq
TCTCTTTTTGTTGACTGCAGGAG
3' ss Score
9.2
5' ss Seq
GATGTGAGT
5' ss Score
7.77
Exon sequences
Seq C1 exon
GTGAGCGTCCCTATCAATGTCCTTACTGTGAAAAAGGATTCAGTAAAAATGATGGACTGAAGATGCACATTCGTACTCACACCAGG
Seq A exon
GAGAAGCCGTACAAGTGCTCAGAGTGCAGCAAGGCCTTCAGCCAGAAGCGAGGCCTGGATGAGCACAAGAGGACGCACACTGGAGAAAAGCCTTTTCAGTGTGAT
Seq C2 exon
GTTTGTGATTTGGCTTTTAGCCTGAAGAAAATGCTGATTCGACACAAGATGACTCATAATCCCAATCGTCCCCTGGCAGAATGCCAGTTTTGCCATAAGAAGTTTACAAGGAATGACTACCTCAAAGTGCACATGGACAATATCCATGGTGTAGCTGACAGCTAATAGGGGCTGTAAAGGAATTAAACTATTCAGAAGGGCTCCTAATATGAATCCCAGATTTTTATCACCTGATCAGCATAACAGAAGTAGCCAAAAGTGACTTACTGGTCTCATAGTTCTTATTTGCCTACATTTAGAGTCTGTAGATGCATATGCAACCAAAAAAAAGTCTTACTTTTAACAAGAAATGGTATAAATGGAAAAAAAATACAACTCCATAGCCTTGCAAAATGCAACTTGTGCTCTGTCTTATAAAAATGGAGAAAGGAGTCATGGCTCTCTTTCTTGGCCATCCCTCTGTAATGAAGTTTATAATATACTTCCCTAATAGGCCTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000138738-'29-31,'29-29,31-31
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.172 A=0.289 C2=0.037
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(57.7=51.7),PF134651=zf-H2C2_2=PU(38.5=34.5)
A:
PF134651=zf-H2C2_2=PD(53.8=40.0),PF134651=zf-H2C2_2=PU(68.0=48.6)
C2:
PF134651=zf-H2C2_2=PD(24.0=10.9),PF0009621=zf-C2H2=WD(100=41.8)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCGTCCCTATCAATGTCCT
R:
GCTGTCAGCTACACCATGGAT
Band lengths:
247-352
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
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)