HsaINT0088967 @ hg19
Intron Retention
Gene
ENSG00000183542 | KLRC4
Description
killer cell lectin-like receptor subfamily C, member 4 [Source:HGNC Symbol;Acc:6377]
Coordinates
chr12:10561511-10562356:-
Coord C1 exon
chr12:10561988-10562356
Coord A exon
chr12:10561610-10561987
Coord C2 exon
chr12:10561511-10561609
Length
378 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
GCCTCTTTCTCTCCCTGCAGGTT
3' ss Score
14.74
Exon sequences
Seq C1 exon
TAAAACTTTAGGAAATTAGTACCAGACTTTTATATTGGTCAACAGCAAAATGAACATTACTACTCAGCCTCCAACACATGCAGTTTGCCTATACCAGGGATCCTGTCAAAATATACACCACTTATAGCTTCTTAAGTGCAGTTATCATAGAGCACAGTCCCTGACATCACACAGCTGCAGAGATGAATAAACAAAGAGGAACCTACTCAGAAGTGAGTCTGGCCCAGGACCCAAAGAGGCAGCAAAGGAAACTTAAGGGCAATAAAATCTCCATTTCAGGAACCAAACAGGAAATATTCCAAGTAGAATTAAACCTTCAAAATGCTTCTTCGGATCATCAAGGGAATGACAAGACATATCACTGCAAAG
Seq A exon
GTAAAACATTAAATAGATCTTCAATATTATTGTTCTAGGATGTGCAGTTGAATGCAGAAAGGTGGGGAAAGATTAGGGAATATTTTGCACTTGTGAGAATCAGAGGTCAAAGTCAGGATCTAATATTCTAATATGAAATCTGAAGCCTGATTTTATTCAGGCATTGTTCAATTGTAATTTGTGATTAACAACTCATGGAGCATTATATTTACTGATAATGAAATGGTATATTCTGAGAGAAAGATTACTAGAGTAGATGTAGATTTAGAGGACAGAGTTTATCATTATGTTTTCCTGTGCACGTGAGTTCTCTTGTACGTAAACCTTCTCATCAACTCTCTATCTCCCCTCTCTCAGTGCCTCTTTCTCTCCCTGCAG
Seq C2 exon
GTTTACTGCCACCTCCAGAGAAGCTCACTGCTGAGGTCCTAGGAATCATTTGCATTGTCCTGATGGCCACTGTGTTAAAAACAATAGTTCTTATTCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183542-KLRC4:NM_013431:1
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=0.302 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF054737=Herpes_UL45=PU(34.9=71.4)
A:
NA
C2:
PF054737=Herpes_UL45=FE(25.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
TCCAACACATGCAGTTTGCCT
R:
TTCCTAGGACCTCAGCAGTGA
Band lengths:
345-723
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
- Pre-implantation embryo development
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)