MmuINT0115079 @ mm9
Intron Retention
Gene
ENSMUSG00000021223 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:MGI Symbol;Acc:MGI:2386139]
Coordinates
chr12:85127505-85127827:+
Coord C1 exon
chr12:85127505-85127632
Coord A exon
chr12:85127633-85127718
Coord C2 exon
chr12:85127719-85127827
Length
86 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGG
5' ss Score
5.2
3' ss Seq
CAATATCTTCTCATGCCTAGGGG
3' ss Score
5.79
Exon sequences
Seq C1 exon
GCACCAGGTGCAGCCTGATGGCTCTCTGGTCATCAGCCGAGTGGATGTGGAAGATGGGGGCTACTACAGCTGTGTTGCTTTTAATGGGCAGGACCGAGACCAGCGCTGGGTCCAGCTCAGAGTTCTCA
Seq A exon
GTAAGGAGGAAGTCTGGGGGTGGGGGAGGTGGTGGGAGGTGGCAGAGGGGTTGGGTTAGCCACTGACAATATCTTCTCATGCCTAG
Seq C2 exon
GGGAGCTGACAATCACAGGCCTGCCTCCTGCTGTGACCGTGGCAGAGGGTGACACTGCCAGGCTTCTGTGTGTGGTGGCTGGAGAAAGTGTGAACATCCGGTGGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021223-Papln:NM_130887:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.273 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(49.4=93.2)
A:
NA
C2:
PF0767911=I-set=PU(39.1=91.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGAGTGGATGTGGAAGATG
R:
CTTTCTCCAGCCACCACACAC
Band lengths:
181-267
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: