MmuINT0085926 @ mm9
Intron Retention
Gene
ENSMUSG00000059022 | Kcp
Description
kielin/chordin-like protein [Source:MGI Symbol;Acc:MGI:2141640]
Coordinates
chr6:29432036-29432940:-
Coord C1 exon
chr6:29432634-29432940
Coord A exon
chr6:29432463-29432633
Coord C2 exon
chr6:29432036-29432462
Length
171 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
GCTTTCCCCTCTGCCTGCAGTGG
3' ss Score
9.38
Exon sequences
Seq C1 exon
GTCCCCAAGGGGCTGGGGCCTGGCCGGCCGTGTTCTGCAGGCCGAGAGGTGGACCCGTGCCGGGCAGCAGGCTACCGTGCCAGGCGTGAGGCCAATGCCCGGTGCGGGATCCTGAAGACTTCACCGTTCAGTCATTGCCATGCTGTGGTGCCCCCGGAACCCTTCTTTGCTGCCTGTGTGTACGACTTGTGTGCTTGTGGTCCAGGCTCCTCCTCTGACACCTGTCTCTGTGATGCCCTTGAAGCCTACGCTAGCCACTGTCGCCAGGCAGGGGTGACTCCTGTCTGGAGGGGTCCTACACTCTGTG
Seq A exon
GTAAGGGGGTGATACCAGTTTGTATTGATGGAAGGCATAGTACAGAAAAGAGGGGCAGCCAAATAGACTCAAGTCTGGACAGAGAGGGCACAGGGAGCCTGTAAAGTATAATGTAACAGCTAGAGGGGCTCTAGGGGACCTCTGTGACATTGCTTTCCCCTCTGCCTGCAG
Seq C2 exon
TGGTGGGCTGCCCTGTGGACCGTGGCTTTGTGTTTGATGAGTGTGGACCACCTTGTCCCCGTACCTGTTTCAACCGGCACATACCCCTAGGGGAACTGGCAGCCCACTGTGTGAGACCCTGTGTTCCAGGCTGCCAGTGTCCTGCAGGCCTGGTGGAACATGAAGGCCATTGCATCTCACCTGAGGTCTGCCCACCAGTCCTGCTTACTGGCGACTAGCCAGCTCACATCCTGTCCAATCCCAGTCAGGAGCAGCCCCTGGTTCCATGCTGAGTTAAGAATACCCATATCCCGAACTTACCTGGCCAGAGGTTACCCCTTGGTGAGCAGTAGTGGAGACTGCCCTGCTCAGGCAATGGGATCTTATGCCAGTCCTCCAGACATCCACAGTGTGAAAACACAAGAATAAACTCTACACTTGCCCATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059022-Kcp:NM_001029985:37
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF087426=C8=PU(97.4=71.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTGGAGGGGTCCTACACTCTG
R:
ACAGGATGTGAGCTGGCTAGT
Band lengths:
257-428
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: