HsaINT0187654 @ hg38
Intron Retention
Gene
ENSG00000198028 | ZNF560
Description
zinc finger protein 560 [Source:HGNC Symbol;Acc:HGNC:26484]
Coordinates
chr19:9469630-9470518:-
Coord C1 exon
chr19:9470392-9470518
Coord A exon
chr19:9469711-9470391
Coord C2 exon
chr19:9469630-9469710
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:ENST00000301480:7
Average complexity
IR
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
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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