MmuINT0085900 @ mm9
Intron Retention
Gene
ENSMUSG00000059022 | Kcp
Description
kielin/chordin-like protein [Source:MGI Symbol;Acc:MGI:2141640]
Coordinates
chr6:29447905-29448358:-
Coord C1 exon
chr6:29448277-29448358
Coord A exon
chr6:29448058-29448276
Coord C2 exon
chr6:29447905-29448057
Length
219 bp
Sequences
Splice sites
5' ss Seq
CCGGTGTGT
5' ss Score
6.56
3' ss Seq
GACAGACTTCCTTGCTGCAGCCT
3' ss Score
4.76
Exon sequences
Seq C1 exon
GCTGGTGAAGTATCCTGTGAAGAACAGGACTGCCCAGTCACTCCCTGTGTCCGCTCTGCCTCCGGCCCCCAGCTCTGCTCCG
Seq A exon
GTGTGTATGTGTGAACGTTGGGGAGCAACTGCTAAGGTCACTATTACCATGGAGTGGGGTTCAGGGGAGAACTCCACTCCAGAAAGGATGGTCTACTAGGCATTTGGGAGTTTGAGCAGAGGCTATGAACTAGGGCGCCCCCCCCCACCCCCAGGTTGGGAAGGACAAGGATGGATGAAGGTATTCAGGTTGCCATGGTGACAGACTTCCTTGCTGCAG
Seq C2 exon
CCTGTGTGCTCAATGGTGAGGAGTTTGCTGAGGGGATCCAGTGGGAGCCAGATGACCAGCCCTGTACTTCCTGTTCCTGCCAAGATGGAGTGCCTGTGTGCAGGGCTGTGCTTTGCTCTCCAGTACCCTGCCAACATCCTACCCAGCCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059022-Kcp:NM_001029985:13
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:
PF0009313=VWC=PD(47.3=92.9)
A:
NA
C2:
PF0009313=VWC=PU(87.7=96.2)
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:
GCTGGTGAAGTATCCTGTGAAGA
R:
AGGTGGCTGGGTAGGATGTTG
Band lengths:
234-453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: