MmuINT0115083 @ mm10
Intron Retention
Gene
ENSMUSG00000021223 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:MGI Symbol;Acc:MGI:2386139]
Coordinates
chr12:83771819-83772224:+
Coord C1 exon
chr12:83771819-83771879
Coord A exon
chr12:83771880-83772121
Coord C2 exon
chr12:83772122-83772224
Length
242 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
ACATACATGTTCTCGTGCAGAGC
3' ss Score
7.71
Exon sequences
Seq C1 exon
GAGAGACGGAGGCACCAGCTGCGTGGGCCCCGCGCGCAGCCACCGCACCTGCCACACGGAG
Seq A exon
GTAAAGCCTGCGTGTCCCTCCCCACCCCATCCCCGGCCGCCTCTCTCCTACCCTCCTCACGCCCCGCCTTCGACCTGCCAGGCACCTAGGGAGAGCAAGAAGCCTCTCCTGGGACAGGAGTGGGTGGGGCAGAAGCGCAGGACCCAGGGCTCCAGGACACGGAAGATGGATAGGGGAGGTCCTTAGCCGCCTCAGTGCCCACGCTGGCACCCATGTTCTCTGACATACATGTTCTCGTGCAG
Seq C2 exon
AGCTGCCCAGACGGCGTGCGGGACTTCCGGGCCGAGCAGTGTGCAGAGTTCGACGGCACCGACTTCCAGGGTCGGCGCTACCGGTGGCTGCCCTACTACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021223:ENSMUST00000121733:4
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:
PF0009014=TSP_1=FE(40.0=100)
A:
NA
C2:
PF0009014=TSP_1=PD(2.0=2.9)
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:
GAGAGACGGAGGCACCAGC
R:
TAGTAGGGCAGCCACCGGTA
Band lengths:
159-401
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