HsaINT0187119 @ hg19
Intron Retention
Gene
ENSG00000186812 | ZNF397
Description
zinc finger protein 397 [Source:HGNC Symbol;Acc:18818]
Coordinates
chr18:32822355-32823257:+
Coord C1 exon
chr18:32822355-32822848
Coord A exon
chr18:32822849-32823115
Coord C2 exon
chr18:32823116-32823257
Length
267 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
CCATATTTTACTGATTTCAGGTC
3' ss Score
6.87
Exon sequences
Seq C1 exon
GAAAGAAGAGATTACTCACACTCCTTCGCAAGCACAGAACCAGTTGTACTGAGCTTTTTGCTAAGCTGTTTCAGCCAAGAATGGCTGTGGAATCTGGAGTGATTTCAACCCTGATACCTCAGGATCCTCCGGAACAAGAACTAATACTAGTGAAAGTAGAAGATAACTTTTCCTGGGATGAGAAATTTAAGCAGAATGGGAGTACTCAATCCTGCCAAGAATTGTTTCGTCAGCAATTCAGAAAATTTTGCTACCAGGAGACACCTGGGCCCCGGGAGGCTCTGAGCCGACTCCAGGAACTTTGCTATCAGTGGCTAATGCCAGAGTTGCACACAAAGGAGCAGATCTTAGAACTGCTGGTACTGGAGCAGTTCCTGAGCATTCTGCCTGAGGAGCTGCAGATCTGGGTTCAGCAACATAATCCAGAAAGCGGCGAGGAAGCTGTGACCCTGTTGGAGGATTTAGAGAGGGAGTTTGATGACCCAGGGCAGCAG
Seq A exon
GTGGGAACGGAGAAAAGTGATGTGGGAAAAGGAATTTACAGCCTGGAGCATGTAATGGTATCATAACAGTAGGATAAAAATTTTTATGTCTCTACTGAACCCTAACCTGAAGTGACTAATAGAGCCATACTTGTCTATACCCTTGAATGGTCTTTTTCCCCTGTCCTTCATCCCTGGAGATGTCATCATTGACCTCTTTGAGATTTTTACTAAGCAAGTTTTCTTAGGGATTTTCTCACAAAGCTAACCATATTTTACTGATTTCAG
Seq C2 exon
GTCCCAGCTAGTCCACAGGGACCAGCAGTGCCATGGAAGGATTTAACATGTCTCAGAGCATCCCAAGAGTCAACAGACATCCACCTCCAGCCCTTAAAGACACAGCTGAAATCCTGGAAACCATGCCTTTCCCCTAAAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000186812-ZNF397:NM_001135178:2
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=0.132 A=NA C2=0.186
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=68.1)
A:
NA
C2:
PF0202312=SCAN=PD(0.1=0.0)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCGACTCCAGGAACTTTG
R:
GCTGGAGGTGGATGTCTGTTG
Band lengths:
302-569
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)