HsaINT0088979 @ hg19
Intron Retention
Gene
ENSG00000150045 | KLRF1
Description
killer cell lectin-like receptor subfamily F, member 1 [Source:HGNC Symbol;Acc:13342]
Coordinates
chr12:9994408-9995032:+
Coord C1 exon
chr12:9994408-9994550
Coord A exon
chr12:9994551-9994919
Coord C2 exon
chr12:9994920-9995032
Length
369 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
GTCCCTCGTCCACATTTTAGGCT
3' ss Score
7.29
Exon sequences
Seq C1 exon
TACTATGCCAATCAGAATGGCTCAAATACCAAGGGAAGTGTTGTTATTGGTTCTCTAATGAGATGAAAAGCTGGAGTGACAGTTATGTGTATTGTTTGGAAAGAAAATCTCATCTACTAATCATACATGACCAACTTGAAATG
Seq A exon
GTAATTGGTCTAGTATCAGGGTTATGGCATCTTTGCAGTAAAAAATGGCTTTCCTCAAATATCTTTCCATCTTTGCATTAAATCATCATTTACCTTGATTATCGAGTTTTGGGCACCCTCTTAAATTTTGTATTCCAAGTGAGTGCCTCACTTCTCATGCTAGATCTGGCCCAAATTCATATATTCAACTTGCAATTGTGTGTGTGTGTGTGTAACATATATATGATATAATGTGTGTATAAGTAAGATATGAATTGATTACCATAAGAATCCCTATGCAGAGTGCTTTTTTGCAATAACATTTAAAATATTCAGTGTGTCTGAATTGCTAAAATATTTTGTTCATTTAGTCCCTCGTCCACATTTTAG
Seq C2 exon
GCTTTTATACAGAAAAACCTAAGACAATTAAACTACGTATGGATTGGGCTTAACTTTACCTCCTTGAAAATGACATGGACTTGGGTGGATGGTTCTCCAATAGATTCAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000150045-KLRF1:NM_016523:4
Average complexity
IR-S
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:
PF0005916=Lectin_C=PU(26.7=56.2)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.6=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
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:
ACTATGCCAATCAGAATGGCTCA
R:
TCTTTGAATCTATTGGAGAACCATCC
Band lengths:
254-623
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)