HsaINT0187651 @ hg19
Intron Retention
Gene
ENSG00000198028 | ZNF560
Description
zinc finger protein 560 [Source:HGNC Symbol;Acc:26484]
Coordinates
chr19:9583855-9585001:-
Coord C1 exon
chr19:9584875-9585001
Coord A exon
chr19:9583936-9584874
Coord C2 exon
chr19:9583855-9583935
Length
939 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
TATCATTTCTTCATGTAAAGGAT
3' ss Score
6.34
Exon sequences
Seq C1 exon
TACTCCGTGACCTTTGAGGATACAGCTGTGGACTTCACCCAGGAGGAGTGGATTTTACTGGACCCAGTTCAGAGAAACTTATACAGAGATGTGATGCTGGAGAATTATGAGAACGTGGCCAAAGTAG
Seq A exon
GTAAGACTGCCATCATTTTATGCAGCCTCTTAGGGAAGAGATATACATTGTGTACTTGCTGTGTTCCAGAATTGGTTTGTTCAACACTGAATTCACCAGAGACGTTGTCCCTGCCATAATAGGTCTTAATTACTGTGGTCGTTTTCAAAGTGTGGTCCAGTTTCGACAGCATCACTGTTACTCCCTTAGAAATGTACAGTCTTAGTCTCTGCCTTTGACCTACTGAATCAGAAACTCTCCACTTGGATTGTCATCTGTGTGTTAACTATCCTTCCACATCAATTTGATGCACTATAATATTAAGAATCACTGGTGTAGTTGTATTCTCCAAGTATACAAGGGTCTCTTTGTTTCACTTTTTTTCTTTTTTTTCTTCATTCAGGAGTTTGACAACATACCTTATTTCTGTGACTAAAAGGTTATTGCTTTGTAAATGTGCACATAAGCATGAATTTGCATTTCAGAGGTCAGAGAGCCAATTTTGGGGTGCACAGAAATAAGAGATATTTTCAGTTTTAGTCCATTTGAAATAATTTCACTGCTTTCTCTAAGAACTATAGTTCTATAATGTAAAGTTTATCATCTCTTGCATGAGCCTCTTCCATTATTTTTTTTTTTTTGAGATGGAATTTTGCTCTTGTTGTCCAGGATGGAGTGCAGTGGCATGATCTCGGCTCACTGCAACCTCTGCCTCCTGGGTTCAAGCAATTCTTCTGTCTCAGCCCCCCAAGTAGCTGGGATTATAGGCACACGCCATCACACCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGGTTTCACCATCTTAGGCTGATCTTGAACTCCTGACTTCAGGTAATCCACCCACTTCAGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACTGTGCCTGGCCTGAGCCTCTTCCATTAATGTATCATTTCTTCATGTAAAG
Seq C2 exon
GATTTCAGCTCTTTAAACCCAGTGTCATCTCTTGGTTGGAAGAAGAAGAGTTGAGAACCTTGCAGCAAGGAGTTCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198028-ZNF560:NM_152476:4
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:
CCGTGACCTTTGAGGATACAGC
R:
GGAGAACTCCTTGCTGCAAG
Band lengths:
201-1140
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)