HsaINT0185869 @ hg19
Intron Retention
Gene
ENSG00000189298 | ZKSCAN3
Description
zinc finger with KRAB and SCAN domains 3 [Source:HGNC Symbol;Acc:13853]
Coordinates
chr6:28331080-28331592:+
Coord C1 exon
chr6:28331080-28331162
Coord A exon
chr6:28331163-28331468
Coord C2 exon
chr6:28331469-28331592
Length
306 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGGATTACCTATTGTTTTAGGGG
3' ss Score
6.06
Exon sequences
Seq C1 exon
TTCTCCAGGTCCCCGTGCTTGCCCATGGAGGATGCTGCAGAGAAGATAAAGTGGTAGCTTCTAGGCTTACTCCAGAGTCCCAG
Seq A exon
GTGAGCTGGAGCCCTATCCCTCCCCCAATGCCCCTCACTACTATTGAGCTTCCTGTGAAGACTCCTCACTCCCCATTCCCCTCCACCCCAATCCTAGATCCTCCATACAGATCTCAAATGGGATCTGCATTTTCTCATCTATCTCGAGGTTGTTTATCATTAACTTTATTTAGGTGCCCACTTAAGAGGCTTTTCCTGTTTATTACTAGCTGTTGGCAGGAATGGGGCCTGGGGGTGCTTCCCAGATCTTCCCCACTCCACCATTTTGGTCAGCCCCTTCTTCAATGGGATTACCTATTGTTTTAG
Seq C2 exon
GGGTTGTTGAAAGTGGAAGATGTGGCCCTGACCCTCACCCCTGAATGGACACAGCAGGATTCATCTCAGGGGAATCTCTGTAGAGATGAAAAGCAGGAGAACCATGGCAGCCTGGTCTCCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000189298-ZKSCAN3:NM_024493:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.643
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTCCAGGTCCCCGTGC
R:
GACCAGGCTGCCATGGTTC
Band lengths:
200-506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)