HsaINT0187650 @ hg19
Intron Retention
Gene
ENSG00000198028 | ZNF560
Description
zinc finger protein 560 [Source:HGNC Symbol;Acc:26484]
Coordinates
chr19:9584875-9586045:-
Coord C1 exon
chr19:9585960-9586045
Coord A exon
chr19:9585002-9585959
Coord C2 exon
chr19:9584875-9585001
Length
958 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
ACATGTATGTGATGGTTTAGTAC
3' ss Score
3.49
Exon sequences
Seq C1 exon
GTCTTTCTAGGAACCCAATCTGCCTTCATGAAGAAAAGACAGAGGCAGAAAGGAAGATGGCTTACTGCCTGACAAATTGTTATCAG
Seq A exon
GTATGCAGAAAATGTATACTTCCACAAAATGACATACTTGCATCACCAGGTAAACACATTTCCTTCTAGGCAGATGTGTCTCCAGAGCTTCTTTAAGTAAATAAAGACTCACTCAAGCACTGAGTCACTTGTTGAATTTCCCCAGGGAGTGGAGGTTCTCATACTGATAATCCTTGAAAAGCATTTCAGCATTTCAGTAATTGTTAATTAATTTTGTCCCTTATGGTGCCAGATATATATTTCTTATTTTGCTGAGTGGTCTGGCAGATGGAAAGGAAGATGAAAGCATCCTTTACTCAAAGGCTAATCCTGGCCAGGTGCAGTGGCTCACACTTGTAATCTCAGCACTTTGGGAGGCTGAGAAGTGAGTGGCATTATCGCTTGATCTTAGGAATTTGAGACCAGCCTGGGCAACATACTGAGACATTGTCTCCACAAAAAAAAAAAAAAAAAAAAAAAATGCCAGGCATGGTGGTGCATGGCTGTAGTCCTAGCTACTCAGGAGGCTGAGGCAGGACGATCACTTGAGCCCAGTAAGTCAAGGCTGCAGTGAGCCATGATCACACCACTGCAGTCCAGCCTACGTGACAGAGCAAGACCCTGCTTCCCAAAAAAAAAGGCTAATCATTCATCGCTGTTTATCAAGTATATGATGCAGTGTACTCTGGGATATCTTTTAGTAGAGGGAAATAAGTTGAGAAAGCACTCACAGTCTGCTTGTGATGAGAAGTTCATGATTGAGATGTGCCATTAAAGCCATACAACTGGAATTGTTAAGTAGTGAAAGAGCAAGGATAGAGAGAGGAATACCTGAGATTTACCTGGGATTATTAAGCTTTGGGTAGATAATGAGAGACCTCACAACTCTTTATAGGCATTGGGGTCTGTTAACTGATTCTTCAGTGAACACTGGTTAATCTGTTACTTGGCTCAAATCAACATGTATGTGATGGTTTAG
Seq C2 exon
TACTCCGTGACCTTTGAGGATACAGCTGTGGACTTCACCCAGGAGGAGTGGATTTTACTGGACCCAGTTCAGAGAAACTTATACAGAGATGTGATGCTGGAGAATTATGAGAACGTGGCCAAAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198028-ZNF560:NM_152476:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
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:
TCTAGGAACCCAATCTGCCTTCA
R:
CTACTTTGGCCACGTTCTCAT
Band lengths:
208-1166
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)