HsaINT0185858 @ hg19
Intron Retention
Gene
ENSG00000106261 | ZKSCAN1
Description
zinc finger with KRAB and SCAN domains 1 [Source:HGNC Symbol;Acc:13101]
Coordinates
chr7:99627484-99627998:+
Coord C1 exon
chr7:99627484-99627575
Coord A exon
chr7:99627576-99627871
Coord C2 exon
chr7:99627872-99627998
Length
296 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTGTCTCGTGTTATTTTAGGCA
3' ss Score
9.05
Exon sequences
Seq C1 exon
CTCTTCCTGCTGCCCACATTCCTGCACCCCCTCATGAGGGTAGTCCCAGAGACCAGGCGATGGCATCTGCACTATTCACAGCGGATTCCCAG
Seq A exon
GTGAGCTGTGGCCCCTCTGCTCTCCTGAGTCCTCAGTGTCTGCCTCTGTTCCTGAGCTCTCTTCATTATCTCCACAGGCCACTCTGGATGCCCCTGCTCTCAAAGAAGCCCCAACCCTGTCCTCTCCTTTTAGCATCTTTCTACCACAAACTCCCCTCCACCCCCAGGTTCTGGCCACCCTTTTCTTCCCAGCGTCCTGTAGCTTTGCAGCCACCTCTCTTCCTGACTCCAGGTTTGAGCAATGGGATTGTCCCTGAGTTTGGGGGGAAATGACTGTTTGTCTCGTGTTATTTTAG
Seq C2 exon
GCAATGGTGAAGATCGAGGACATGGCTGTGTCCCTCATTCTGGAGGAATGGGGATGTCAGAATCTGGCTCGGAGGAATCTCAGTAGGGACAACAGGCAGGAGAATTATGGGAGCGCATTTCCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000106261-ZKSCAN1:NM_003439:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.935 A=NA C2=0.481
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTTCCTGCTGCCCACATTC
R:
AAATGCGCTCCCATAATTCTCCT
Band lengths:
212-508
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)