MmuINT0115087 @ mm9
Intron Retention
Gene
ENSMUSG00000021223 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:MGI Symbol;Acc:MGI:2386139]
Coordinates
chr12:85115352-85115691:+
Coord C1 exon
chr12:85115352-85115432
Coord A exon
chr12:85115433-85115518
Coord C2 exon
chr12:85115519-85115691
Length
86 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
GACAGGCTGGGTTTCCACAGCCG
3' ss Score
4.19
Exon sequences
Seq C1 exon
GCTACAACCAAATCTTCATCATTCCGGCTGGGGCCACTAGTATTCGCATTGAGGAAGCCGCTGCCAGCAGGAATTTCCTGG
Seq A exon
GTGAGAGATGCTTTGGAGCTGGGCAGCCTGGGGCACAAAGGGGCAACTCGCTGTCCCATGTCCCCTGACAGGCTGGGTTTCCACAG
Seq C2 exon
CCGTGAAGAGCATCCGTGGCGAGTACTATCTCAATGGGCACTGGACCATTGAGGCAGCCCAGGCTCTTCCGGTGGCCAGCACAGTCCTACAGTACGAACGGGGTGTGGAGGGGGACCTGGCTCCTGAGCGGCTCCAGGCACGGGGCCCCACCTCAGAGCCCCTGGTCATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021223-Papln:NM_130887:8
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=0.207
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=FE(23.3=100)
A:
NA
C2:
PF059869=ADAM_spacer1=FE(49.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTTCATCATTCCGGCTGGG
R:
CCCCGTTCGTACTGTAGGACT
Band lengths:
173-259
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: