HsaINT0187981 @ hg19
Intron Retention
Gene
ENSG00000187815 | ZNF642
Description
zinc finger protein 642 [Source:HGNC Symbol;Acc:24708]
Coordinates
chr1:40954760-40955296:+
Coord C1 exon
chr1:40954760-40954886
Coord A exon
chr1:40954887-40955200
Coord C2 exon
chr1:40955201-40955296
Length
314 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TTTTTTTACTACATAAGCAGGAT
3' ss Score
3.69
Exon sequences
Seq C1 exon
GAATTGTTGACTTTCAAGGACATATCTATTGACTTCACCCAGGAAGAGTGGGGGCAGCTGGCTCCTGCTCACCAGAATCTATACCGAGAGGTGATGCTGGAGAACTACAGCAACTTGGTGTCAGTGG
Seq A exon
GTAAGACTTGGCTATCCATGCATCCAGAAACCCACCCATTACAGGAGAGTCATTATTTTAAATTATTGATGTGTAGATTCCTTGAGGCTTGATTTGGGTTCTGTATTAAAGATGTCTTATTCCCTTTGAAAACCAAGTGAGGGCATATCCAATTTGACTTTCTTGGGGAACAACTTTACTACACATAGTTAGGATAGAAAGACCCACCCCTTTCCACTTGTGGAGACCCTGAATACCAGAAGACTCAAAATTCTGAGGATGGTTCTTAGACATCAGCATAAACATTCACACTGTTTTTTTTACTACATAAGCAG
Seq C2 exon
GATATCAACTTTCCAAACCTAGTGTGATATCCCAGTTAGAGAAAGGAGAAGAGCCATGGATGGCAGAGAAAGAAGGCCCAGGAGATCCCAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187815-ZNF642:NM_198494:4
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=0.606
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTGTTGACTTTCAAGGACATATCT
R:
CTGAACTGGGATCTCCTGGGC
Band lengths:
222-536
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
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)