HsaINT0187985 @ hg19
Intron Retention
Gene
ENSG00000187801 | ZNF643
Description
zinc finger protein 643 [Source:HGNC Symbol;Acc:28053]
Coordinates
chr1:40922617-40923111:+
Coord C1 exon
chr1:40922617-40922743
Coord A exon
chr1:40922744-40923015
Coord C2 exon
chr1:40923016-40923111
Length
272 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
CTTTTCTTCCCCATAAGCAGGAT
3' ss Score
6.59
Exon sequences
Seq C1 exon
GAACTGTTAACCTTCAAGGACGTATCTGTGGACTTCACTCAGGAGGAGTGGGGGCAGCTGGCCCCTGCTCACCGGAATCTGTACCGGGAGGTGATGCTGGAGAACTATGGGAACCTGGTCTCAGTGG
Seq A exon
GTAAGGATGGGCTCCTCTTGAAAATAGAACGTACCTATTGGATGAAAACCTTTGTTTCTAAATTAAGTGCTTTGTTTGGGCTTTCGGTTCTGTATTAGAGGTTTTGTGTTTCCTTCTGAACACCCAGTCAGGATTGCTATGCTCTTTTCTGCTCTGTTCTTTCTACTCTACTCTGCTTTCTTTAGAAGGCCCGAATACCAAAGAACCATATTTAAATTCTTGGGATGGCTCTGTGACCTCAGCATATACAGTCTTTTCTTCCCCATAAGCAG
Seq C2 exon
GATGTCAGCTTTCCAAACCTGGCGTGATTTCCCAGTTGGAGAAAGGAGAAGAACCATGGCTGATGGAGAGAGATATTTCAGGAGTTCCAAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187801-ZNF643:NM_023070:3
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=0.352
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGTTAACCTTCAAGGACGT
R:
TGAACTTGGAACTCCTGAAATATCT
Band lengths:
220-492
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)