MmuINT0085898 @ mm10
Intron Retention
Gene
ENSMUSG00000059022 | Kcp
Description
kielin/chordin-like protein [Source:MGI Symbol;Acc:MGI:2141640]
Coordinates
chr6:29498429-29498880:-
Coord C1 exon
chr6:29498787-29498880
Coord A exon
chr6:29498515-29498786
Coord C2 exon
chr6:29498429-29498514
Length
272 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TCCCCTGTCCTCCTGTCCAGGCT
3' ss Score
9.95
Exon sequences
Seq C1 exon
AATGGGAGTGTCCAGTGTGAGCCTCTGCCCTGCCCGCCTGCACCCTGCAGATACCCGGGCAGGATCCCTGGGCAGTGCTGCCCTGTCTGTGATG
Seq A exon
GTGAGTGGGGGCACGGTCACCATTCACCGTGCAGGGGGCAGGCACCAACTAGGGACAGGCTCTGGATGGTGGTGAGCTCTGATTGCCTTGCACCTACACCCCTCCCCCAGAATTGAGTCCTTACCTCTCCTCTCAAGGCGCGCATCTCTGTGGTGGCCTAAAGGTCATGCCTAGGCAATCTTCCTCAAGATAGGGATATATGCCTTGGAGTGGCATGATGCTTCCTGCTCAGCCACTAGTCCTGTCCCCCAGTCCCCTGTCCTCCTGTCCAG
Seq C2 exon
GCTGTAAATACCAGGGACATGAATATCGGAGCCAGGAGACCTTCACCCTCCAAGAGAATGGCCGCTGCCTTCGGTGCGTCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059022:ENSMUST00000101614:11
Average complexity
IR
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:
PF0009313=VWC=PD(51.8=90.6)
A:
NA
C2:
PF0009313=VWC=PU(49.1=93.1)
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:
AATGGGAGTGTCCAGTGTGAG
R:
CTGGCAGACGCACCGAAG
Band lengths:
180-452
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