MmuINT0088256 @ mm10
Intron Retention
Gene
ENSMUSG00000030167 | Klrc1
Description
killer cell lectin-like receptor subfamily C, member 1 [Source:MGI Symbol;Acc:MGI:1336161]
Coordinates
chr6:129678296-129678910:-
Coord C1 exon
chr6:129678724-129678910
Coord A exon
chr6:129678398-129678723
Coord C2 exon
chr6:129678296-129678397
Length
326 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTTGCATTTCTCTCTGAAGGTT
3' ss Score
9.89
Exon sequences
Seq C1 exon
ATGAGTAATGAACGCGTCACCTATGCAGAACTGAAGGTGGCAAAGAACTCAAGGAACCAGCACAGGAAACCAAGGGGTCCTCGCAGCTCCATTTCAGTCATCGAGCAGGAAATCATCTATTCGGACTTCAGCTTTCAAAATCCTTCTCAGGAGCATCCCTGGATCTGCAGGAATTGCCCCTGCAAAG
Seq A exon
GTGAGCCACTGGGTGGACCCTGCACTGCGATGCCAGGGCCATGAAGAGGTGTGGGCAGAGGTAGAAATGGTCTTTTTTGGGAGGGCCGTAGTTCTCACTTGACCTATGCTTTTGTAAATTGGGAGCGTAGATTTCACTCTGTTGTAAGACTTTCTGGATCGCTCTGTTCACCAAAAGTAAAACAGTACTGCCTACAAACAGATCACTGCATGGAGAAGAGCCGGGGATCAGAGGTTATCTGTTTGTCTCAATGTGTATGTAGGTTTTTTGTGTTCATAAACCTTGTGAACAGCCACCTTCATAAACCCTTGCATTTCTCTCTGAAG
Seq C2 exon
GTTTTCCATCTCCTCCAGAGAAACTCATTGCTGGTACCCTGGGCCTCATCTGTTTTGTCTTAATTGTCGCTGTGGTTGTAATTACTACAGTTGCCACACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030167:ENSMUST00000118447:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF083915=Ly49=PU(53.4=88.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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:
TGAGTAATGAACGCGTCACCT
R:
TGGTGTGGCAACTGTAGTAAT
Band lengths:
287-613
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types