HsaINT0088970 @ hg19
Intron Retention
Gene
ENSG00000134539 | KLRD1
Description
killer cell lectin-like receptor subfamily D, member 1 [Source:HGNC Symbol;Acc:6378]
Coordinates
chr12:10460577-10462079:+
Coord C1 exon
chr12:10460577-10460683
Coord A exon
chr12:10460684-10461986
Coord C2 exon
chr12:10461987-10462079
Length
1303 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CTGTCTGTCTTTCTCTACAGTGT
3' ss Score
12.25
Exon sequences
Seq C1 exon
ATTCTTTAATCTCCAGCTCAGCTTCAACAATTCAACGCTGTTCTTTCTGAAAAAGTACACATCGTGCCTTCTCTACTTCGCTCTTGGAACATAATTTCTCATGGCAG
Seq A exon
GTATGTGTGATTTCAGTCACTAAATTAAAAATAACCAGAAAAGCTATTTCTTGGATTGGCTGATTTTGGGGTAATGCTTTAAGAGAAAAGGACATGATTAACAGTGGATGTTTTTAGGATTTTCATGCATTAGCACTTTCCACATTCATTATATTTTCCTGATTCTTCATTGTATAACTTAGACATGATTTCATGAAGTTTTTTCCACAGGTTTGAAGAGTGGTTTCTGACAGGGCTACCTTTAAATTCTGAGTGAGAACTGAACTTTAGCCTGGTTAAATTGTGAGCAACAGTGTTCTAGTATAGCAATAGAAAATGCCAAATATTAATGACACAATGCTGAAAAGGTTTTAATTGACTATTTATGTTGTGACATCCAAAAATTACACAAATGAACAGTTTGACACATTGTACTGTTGTTAATGACATCACTCTTTGAGAGTGTGTTCACGTTAGCACAGAATCTCCTAATGTTGAAATGTTTTAGGTGAAAGGCCTAAAAGCAAGTAATTTTGAGTATGAACAAATGGAATGTTCTAGGGGAAAAAGGATTGTTTATGTATGTTCAATATACTGTGAAATGAAGCCAGGCCTCAAAGTTGTTACCCATCAATTTGTTATCAGTTATCACACCAAGTCCAGAATGTTCCTATGTCTTCTTTTCCCTATAATATCTCTACGAACCAATGAGCAGCTAGACATTTATCAGAGCAAAACCTGCACTGAGATGAGGAGAGGGCATACTCTCAACTAGTATTATTGTGACAATGGTAGACTACGTTGAATGAAAGATTCTTGAGCTAGACACACTTTCATGTGATTTCTGACTTGGATACTTACTTGCTTTGATACCTTGAGAAAATAACATTATTATTGGACCTTATGTTTTCTCATCTATGTAATGAGAACCATACTATCTATCTTGTGATTTTGTTGAGAGAATAAAAATAAATGCCTGTTATGTAAGTCCATAAAACACAACGTGGTGCTTGTTAATATCTTCTACCTCCAGATCTTTAAGCACCTCTGCCAATTTAAAATAAATGGTAAATTCACTTTACTGCAACAGAGCTGGTAGAGAAGAAAATGTTTGAATAATCTTCCTGAAGAATAAGATACATCACATAAAAATGTTGGTATTGGGTGAAGTCCCGATTGGAAAGTCTTCAGTGTTTTATTGGCAAGATGACTCCGTTATCAAATGAAAGAATGTTGTGGATTCTCCGTCACTAGTTTCTGCTTTTAAGAACTCAGCTCCTGAGTTTGCTCTTTAAGTCATTACTCTGTCTGTCTTTCTCTACAG
Seq C2 exon
TGTTTAAGACCACTCTGTGGAGGTTAATTTCTGGGACCTTAGGGATAATATGCCTTTCGTTGATGTCTACGTTGGGAATTTTGTTGAAAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134539-KLRD1:NM_001114396:2
Average complexity
IR-C
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:
PF059667=Chordopox_A33R=PU(24.7=71.9)
Main Inclusion Isoform:
NA
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:
TTCTTTAATCTCCAGCTCAGCTTCA
R:
ATTTTTCAACAAAATTCCCAACGT
Band lengths:
198-1501
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)