HsaINT0187654 @ hg19
Intron Retention
Gene
ENSG00000198028 | ZNF560
Description
zinc finger protein 560 [Source:HGNC Symbol;Acc:26484]
Coordinates
chr19:9580306-9581194:-
Coord C1 exon
chr19:9581068-9581194
Coord A exon
chr19:9580387-9581067
Coord C2 exon
chr19:9580306-9580386
Length
681 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
GTATCTTTCCCTGTGTACAGGTT
3' ss Score
9.37
Exon sequences
Seq C1 exon
GACCTGGTAACCTTTGACAGTGTGGCTGTGGAGTTCACCCAGGAAGAGTGGACTTTACTGGACCCAGCTCAGAGAAACCTGTACAGTGATGTGATGCTGGAGAACTACAAGAACCTGTCCTCAGTAG
Seq A exon
GTAAGTCTGGCATCATCCCTTGTAGCCTATTCTGGAACAAGATACAAATTATGTACTTACTGTATTCTAGGATTAGTGATGTCAAATCTGAATACAGTGGGATATATACACACTGAAAAAAAATTTTTTTTAATGAGTAAAATAGGAAATAACAGAGACAGTTCCTGTACTAATGGGTTTTAATCTTGTATGGTAGTTTGCGTCAGTAGCATCACCATCACTGTCTTAGATATGTGTACATTCTCAGACTCGATGTACTAAATCAAAAAGTCTGCTGTTGGGGCCCTGTATTCAGATGAGTAATTCACTCTAAAGTTCAGAACTACTGGAATGGGAGTTTTCCCAGGAGAATCAAGATCTCTCTTTGAGCTTCCATTAGTTTCTATTTTAATAAAGGTTTTAGTGGTTTTTAGAATTTGTATTTAACATTTGCCATTTAGAAAGAAAAAGTGCAGCTCACTGCTAGTGCTTGTTTCTTGGGGCAAACAGGAAATGAGTTAAGCTTGAATGTGAATTTCAGAGGTCAGAGATAACCAGTGTCTTCAGAGAACAGAAAGATGGGATATATGCAATTTAAGTGCTTTTCACTGCTTTAATTAGAAACGTAGTCCCTGTTTCATGGAAAAGTTTGCCATTTCTTGCATGAGCCTCTTCCATTGGTGTATCTTTCCCTGTGTACAG
Seq C2 exon
GTTACCAGCTCTTCAAACCCAGTCTGATCTCTTGGCTGGAGGAAGAGGAAGAGTTGAGCACACTGCCAAGAGTTCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198028-ZNF560:NM_152476:7
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=0.000
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
Other Skipping 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:
GACCTGGTAACCTTTGACAGTGT
R:
TGGAGAACTCTTGGCAGTGTG
Band lengths:
206-887
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)