HsaINT0187187 @ hg19
Intron Retention
Gene
ENSG00000197050 | ZNF420
Description
zinc finger protein 420 [Source:HGNC Symbol;Acc:20649]
Coordinates
chr19:37579941-37582023:+
Coord C1 exon
chr19:37579941-37580029
Coord A exon
chr19:37580030-37581896
Coord C2 exon
chr19:37581897-37582023
Length
1867 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAAT
5' ss Score
6.15
3' ss Seq
CATTTTGTTTGTTGTTTCAGAAA
3' ss Score
9.31
Exon sequences
Seq C1 exon
CTCTGCATTCTCCAGACTCTGTGCTTTCCTAAGATAGGAACCCAGAAGAGGACTGATCATTTCTTGCAGCTCTAAAAACCATGGCTCGG
Seq A exon
GTAAATTGGAGTTTCCTTGTGCTCTTTTCACTTACTTTTTTACAGAGCATGTGTGTGTTTGTATTCCTTACTCCTGAAACTTCATTCCTAACTGACCTCACTCAGGAATGTGCTCCTCAGTTTGTCCCATTCTGATAAGTGATAGTGTCTTCCCTAAGTGTGTCTTTCGAATCTAACCTTTAGTCACATACTTACTCAACAATATGTATATTGTTCAGTAATCTTTGACTAGGAACACTGATCTAACAAAAGTAGAGTTCCCTGATTTCATAAGGTAGAGGAGGATGTTAAATGGCACCACACATGAAAACCTTTTGAACTTCTCTTTAGATCTAAGTTCCCAGGTAGACAAGACAGGAGTTGGTCTTGACTGGGCTCACTCTCAGTATGTGGCAAGCGCTCATGCTTTATGAGTTTTTAAGATTAGGAAGATGATTAGGGACTGAATACAGAGAGATCAGGGATCTTCCCCAGGAACATATAATTTAATATGGATCAATTTGAAATTCGACATTATGTGCTGGTCTTGAATGTATAAATTTGGATTATGTTTTTCACCTTTCTATTGTTTAGAATGATGAAAAGTTACATTTACGGATGAATGGTAAATATGATCATAGTGAAGATGATCATTCACCAGCAGAAGTTGTTGAGAATTATAAACTCTGAGAACCAAGAAATACTTACAAGATTTTTACAACCTAAAATGTTCAAATATGAGCACTTATTAAGTCAGACATATTCATTATATGGAGCTATTCTGTAGCCTATAAAATATTTACTAAATTATTGATGACAAGGAAAATGTTTATGATATAGTACTCTGATCTAATGGTGAATCTGGAGCTTCAATAAATTCTTTAATTTTATACAAATCTTATTTTATAAGGTTTTACAGAAAAATTTTACCATTTTGTTTATTCCTTAAATAATGAAGAGAGAAACTTACATTTATTGAGAATGTATGATACACAATATACATATTGTATAAAATGCTTGTGTATGCTACTTCTTTTAATTGGGACATTGCATTTATTTTATTCCCAGACTTATCTGTAAAGTAAGATGTTCTGTATGCAGAAAATATGTGTAGCAGGCCAGGTGCAGTGGCTCACACCTATAATCCCAGCACTTTGGGAGGCCTAAGCCTTAAGGCCAGGAATTCAAGACTAGCCTGGGCAACATAACAAGACCCCTGTCTCTACAAAAAAATTGGAAAATTATCAGGGCACAGTGGCATGTACTGTGAGTGGCACGTACTGTGGTCTCAACTACTCAGGAGAATGAGACAGGATCACTTAAGCCTAGGAGTTGGAGGCTGCAGTGAGCTATGATGGTGCCACTGCACTCCAGCCTGGATGACAGAGCAAGACCCTGTCTCCAAAACAACAACAACAAAACTATAGCAATAGGAATAATCAGGAACATATTTGTACTTTTCAGCCCATGTGCTCTGTTGCTTCCTTTGTGGAGGGATCTTCATCTCCCTCTCCATTGAAAAAGTATTTTTTTGGCCGGGCACAGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCTAGTCGGGTGAATCACAAGGTCAGGAGTTCGAGACTAGCCTGGCCAAGATGATGAAACCTTATCTCTACTAAAAATACAAAAATTAACTGGGCGCAGTGGCAGGTGCCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATTGCTTGAACCTAGGAGGCGGAGGTTGCAGCGTGCCGAGATCGCGCCACTGCACTCCAGCCTGAGCGACAGAGCAAGACTCCATCTCAAAAAAAAAAAAAGAAAGAAAAAAAGAAAAGCATTTTTTAAATTTCCAAAATTAACATTTTGTTTGTTGTTTCAG
Seq C2 exon
AAATTAGTGATGTTCAGGGATGTTGCCATTGACTTCTCTCAGGAAGAGTGGGAATGCCTGGACTCTGCTCAGAGAGATTTGTATAGAGATGTGATGTTGGAGAACTATAGCAACTTGGTATCACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197050-ZNF420:NM_144689:3
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:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGCATTCTCCAGACTCTGTG
R:
AGTGATACCAAGTTGCTATAGTTCT
Band lengths:
214-2081
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)