HsaINT0126257 @ hg38
Intron Retention
Gene
ENSG00000144283 | PKP4
Description
plakophilin 4 [Source:HGNC Symbol;Acc:HGNC:9026]
Coordinates
chr2:158620990-158621421:+
Coord C1 exon
chr2:158620990-158621121
Coord A exon
chr2:158621122-158621230
Coord C2 exon
chr2:158621231-158621421
Length
109 bp
Sequences
Splice sites
5' ss Seq
AGGGTCTGT
5' ss Score
2.7
3' ss Seq
TCTTGGTTTCATTCTTACAGGAT
3' ss Score
10.26
Exon sequences
Seq C1 exon
ACGTGCCAAATACTGGTGTAAGCAAACCTAGAGTTTCTGACGCTGTCCAGCCCAACAACTATCTCATCAGGACAGAGCCAGAACAAGGAACCCTCTATTCACCAGAACAGACATCTCTCCATGAAAGTGAGG
Seq A exon
GTCTGTTGTGTTATCTTTTAAGTACTGGATTTGCTTTTAAGATTTTATTCTTGAAAGCGAGTGTCAGAAGTGTGTATAATAAAGATATTTCTTGGTTTCATTCTTACAG
Seq C2 exon
GATCATTGGGTAACTCAAGAAGTTCAACACAAATGAATTCTTATTCCGACAGTGGATACCAGGAAGCAGGGAGTTTCCACAACAGCCAGAACGTGAGCAAGGCAGACAACAGACAGCAGCATTCATTCATAGGATCAACTAACAACCATGTGGTGAGGAATTCAAGAGCTGAAGGACAAACACTGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144283:ENST00000389757:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAGAACAAGGAACCCTCT
R:
ACCAGTGTTTGTCCTTCAGCT
Band lengths:
244-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains