MmuINT0085921 @ mm10
Intron Retention
Gene
ENSMUSG00000059022 | Kcp
Description
kielin/chordin-like protein [Source:MGI Symbol;Acc:MGI:2141640]
Coordinates
chr6:29485003-29485560:-
Coord C1 exon
chr6:29485418-29485560
Coord A exon
chr6:29485176-29485417
Coord C2 exon
chr6:29485003-29485175
Length
242 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CTGTTTGGGTCGGGGGCCAGGAT
3' ss Score
2.77
Exon sequences
Seq C1 exon
ACCCTACCCAGTCATGCATGCATCAGGGTCGCTGGGTGGCCTCTGGAGAACAGTGGGCAGTGGATGCCTGCACCAGCTGCTCCTGTGTGGCTGGTACTGTGCACTGCCAGACCCAGCGCTGCAGGAAGCTCGCATGTAGCCGG
Seq A exon
GTGAGTGCCTTGGTTCAAGGTGGTAGGACTAGGGCACAAGGGCACTGCCTCCCCAGAGCGATGAGAGGGGCTTTGGGTTTCTGTTGCCATCCATGAACTACTAGCGGAGCCAGGGCTGGTGCTGTTCCTGGAGTGACCACCAGGGGGTGAACCTGGGTTCAAGGGATCAGTGAGACCACCAGAGGGCTGAGACTTGACAGGGGAAGTGTCCTGTGACTGAATCTGTTTGGGTCGGGGGCCAG
Seq C2 exon
GATGAGGTCCCTGCCCTGAGTCCCGGCAGCTGCTGTCTCCGCTGTTTGCCCCGGCCGGCTTCCTGCATGGCCTTCGGAGACCCCCATTACCGCACCTTCGATGGCCGCCTGTTGCACTTCCAAGGCAGCTGCAGCTACGTGCTGGCCAAGGACTGCCACGGCGAGGACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059022:ENSMUST00000101614:32
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=PU(72.4=87.5)
A:
NA
C2:
PF0009313=VWC=PD(24.1=24.1),PF0009420=VWD=PU(87.8=62.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCAGTCATGCATGCATCAG
R:
AGTCCTTGGCCAGCACGTAG
Band lengths:
292-534
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